bcftools
genomic variant calling and manipulation of VCF/BCF files
Install
- All systems
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curl cmd.cat/bcftools.sh
- Debian
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apt-get install bcftools - Ubuntu
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apt-get install bcftools - Kali Linux
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apt-get install bcftools - Fedora
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dnf install bcftools - Windows (WSL2)
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sudo apt-get updatesudo apt-get install bcftools - OS X
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brew install bcftools - Raspbian
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apt-get install bcftools - Dockerfile
- dockerfile.run/bcftools
bcftools
genomic variant calling and manipulation of VCF/BCF files
BCFtools is a set of utilities that manipulate variant calls in the Variant Call Format (VCF) and its binary counterpart BCF. All commands work transparently with both VCFs and BCFs, both uncompressed and BGZF-compressed.
samtools
processing sequence alignments in SAM and BAM formats
Samtools is a set of utilities that manipulate nucleotide sequence alignments in the binary BAM format. It imports from and exports to the ascii SAM (Sequence Alignment/Map) format, does sorting, merging and indexing, and allows one to retrieve reads in any regions swiftly. It is designed to work on a stream, and is able to open a BAM (not SAM) file on a remote FTP or HTTP server.