varDB-master.zip
varDB-master
Algorithms
UsefullScripts
vargene.Domain.hmm2gff.hiearchical.pl
3.4 kB
vargene.List2Matrix.pl
516 Bytes
vargene.List2Matrix2.pl
539 Bytes
vargene.buildMatrix.counthits.general.pl
2.1 kB
vargene.buildSimilarityMatrix.Genes.aa.pl
2.9 kB
vargene.circosDomain2highlight.V2.pl
515 Bytes
vargene.doR.heatmap.R
1.2 kB
vargene.doTSNE.R
1.4 kB
vargene.findBreakpoint.V7.pl
13.3 kB
vargene.findTwoGenomeInBlast.pl
666 Bytes
vargene.getAAfromFastaDomain2.pl
755 Bytes
vargene.getExtraDomains.pl
190 Bytes
vargene.getSNPvcf.K13.pl
2.1 kB
vargene.getdomains.Matrix.V2.pl
805 Bytes
vargene.hmm2gff.pl
2.6 kB
vargene.meme.graphs.sh
775 Bytes
vargene.parseOrthomcl.Jan19.pl
1.3 kB
vargene.rawReadCountNormalization.pl
631 Bytes
vargene.renameMatrix.DBLstuff.v2.pl
456 Bytes
vargene.renameSeqinBlast_simple.pl
643 Bytes
vargene.AnnotationVARgenes.assembly.V0.2.cov.sh
4.5 kB
vargene.AssemblyPipeline.masurca.PostImprovement.NoReadextraction.sh
4.4 kB
vargene.AssemblyPipeline.masurca.sh
7.1 kB
vargene.mergeOverlappingSamtoolsRegions.pl
809 Bytes
Datasets
FullDataset
varDB.fulldataset.1kb.aa.fasta.gz
134 Bytes
varDB.fulldataset.3kb.nt.1of4.fasta.gz
133 Bytes
varDB.fulldataset.3kb.nt.2of4.fasta.gz
133 Bytes
varDB.fulldataset.3kb.nt.3of4.fasta.gz
133 Bytes
varDB.fulldataset.3kb.nt.4of4.fasta.gz
133 Bytes
varDB.fulldataset.Domains.gff.gz
12.5 MB
varDB.fulldataset.Domains_per_Gene.txt.gz
1.3 MB
HmmerModels
DBL_CIDR_NTS_ATS.hmmdb
2.4 MB
DBL_CIDR_NTS_ATS.hmmdb.h3f
526.4 kB
DBL_CIDR_NTS_ATS.hmmdb.h3i
927 Bytes
DBL_CIDR_NTS_ATS.hmmdb.h3m
1.2 MB
DBL_CIDR_NTS_ATS.hmmdb.h3p
1.5 MB
LENGTH.Domains.txt
190 Bytes
LENGTH.SudDomains.txt
3.6 kB
Subdomain.hmm
32.0 MB
Subdomain.hmm.h3f
5.6 MB
Subdomain.hmm.h3i
8.5 kB
Subdomain.hmm.h3m
13.2 MB
Subdomain.hmm.h3p
15.6 MB
NormalisedDataset
Blastfile.Normalised3kbSet.self.blast.length.gz
5.4 MB
Blastfile.Normalised3kbSet_PacBioVargenes.blast.length.gz
188.0 kB
varDB.Normalised.1kb.aa.fasta.gz
42.0 MB
varDB.Normalised.1kb.nt.fasta.gz
133 Bytes
varDB.Normalised.3kb.nt.noVARx_noExon2.fasta.gz
61.9 MB
varDB.Normalised.Domains.gff.gz
3.2 MB
varDB.Normalised.Domains.txt.gz
302.7 kB
varDB.Normalised.Subdomains.gff.gz
3.7 MB
varDB.Normalised.Subdomains.txt.gz
421.6 kB
Other
Gephi_Asia_Fig4_genomes.gephi
2.2 MB
Gephi_Cambodia_FigS3_genes.gephi
2.2 MB
Gephi_Normalised_Fig3bc_3k_80ov.gexf
3.8 MB
Overview_All_Samples.txt
104.4 kB
README.md
922 Bytes
LICENSE
35.1 kB
README.md
1.3 kB