1572 days ago
Comment on "Biological databases !"
NCBI released a set of GATK-specific dbSNP VCF's, with the "chr" attached. Those can be accessed at ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606/VCF/GATK/.1595 days ago
Comment on "Genome in a Bottle (GIAB) Consortium"
...multiple technologies to generate variant calls and regions for use in benchmarking and validating variant calling pipelines. Currently, benchmark VCF and BED files for small varia...1612 days ago
Comment on "Nanopolis: polish a genome assembly"
...lish.results -P 8 \ nanopolish variants --consensus -o polished.{1}.vcf -w {1} -r reads.fa -b reads.sorted.bam -g draft.fa -t 4 --min-candidate-frequency 0.1 nanopolish vcf2fasta -g draft.fa polished.*....2151 days ago
Comment on "Commercial and public next-gen-seq (NGS) software"
VCF parsing library https://github.com/mendelics/vcf Docs are already on the excellent godoc.org : http://godoc.org/github.com/mendelics/vcf3567 days ago