Samtools is a suite of programs for interacting with high-throughput sequencing data. It consists of three separate repositories:<\/p>\n
Samtools
\nReading\/writing\/editing\/indexing\/viewing SAM\/BAM\/CRAM format
\nBCFtools
\nReading\/writing BCF2\/VCF\/gVCF files and calling\/filtering\/summarising SNP and short indel sequence variants
\nHTSlib
\nA C library for reading\/writing high-throughput sequencing data
\nSamtools and BCFtools both use HTSlib internally, but these source packages contain their own copies of htslib so they can be built independently.<\/p>\n
<\/p>\n
They are installed in\u00a0 Something like this should be added in the PBS script.<\/p>\n export PATH=\/software\/samtools-1.2\/bin:\/software\/bcftools-1.2\/bin:$PATH<\/p>\n export\u00a0LD_LIBRARY_PATH=\/software\/htslib-1.2.1\/lib:$LD_LIBRARY_PATH<\/p>\n <\/p><\/blockquote>\n http:\/\/www.htslib.org\/<\/a><\/p>\n","protected":false},"excerpt":{"rendered":" General Information Samtools is a suite of programs for interacting with high-throughput sequencing data. It consists of three separate repositories: Samtools Reading\/writing\/editing\/indexing\/viewing SAM\/BAM\/CRAM format BCFtools Reading\/writing BCF2\/VCF\/gVCF files and calling\/filtering\/summarising SNP and short indel sequence variants HTSlib A C library for reading\/writing high-throughput sequencing data Samtools and BCFtools both use HTSlib internally, but these source … Seguir leyendo SAMtools, BCFtools and HTSlib 1.2<\/span> \/software\/samtools-1.2\/<\/code>,\u00a0\/software\/bcftools-1.2\/<\/code> and\u00a0 \/software\/htslib-1.2.1<\/code> respectibely.<\/p>\nMore Information<\/h1>\n