hg19KIndel: Ethnicity normalized human reference genome
Authors/Creators
- 1. Institute of Bioinformatics and Applied Biotechnology, Bangalore 560100, India
- 2. Institute of Bioinformatics and Applied Biotechnology, Bangalore 560100, India & Manipal Academy of Higher Education (MAHE), Manipal
Description
The above zip files (hg19KIndel_Resource.zip) contains the following folders. Specific Details about how each file within the below mentioned folders were derived are present in individual README files for each folder
1) hg19Kindel
-hg19Kindel.fa - fasta file representing the modified assembly
2) Gene Annotations
-hg19_refGene.txt - RefSeq gene annotation downloaded from UCSC table browser (for hg19)
-hg19Kindel_refGene.txt - RefSeq gene annotation corresponding to hg19Kindel Genome
3) SnpEff_Database
-snpEffectPredictor.bin - Binary file used by SnpEff to annotate variants
4) LiftOver_and_Chain_File
-hg19Kindeltohg19.over.chain - UCSC chain file for lifting coordinates from hg19Kindel to hg19
-convert_cordinates_vcf.py - Python script to liftover variants(vcf) (only point coordinates) called on hg19Kindel to hg19 coordinate frame