For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.
For RNA-seq, Cufflinks (v2.2.1) with default parameters was further used to assemble the transcripts and quantify transcription levels (FPKM, fragments per kilobase of transcript per million mapped reads) of annotated genes (Trapnell et al., 2010). And for WGBS, CpG methylation level of covered cytosines was estimated using comstomized Perl scripts.