![]() These old versions remain available from the Sourceforge samtools project. Prior to the introduction of HTSlib, SAMtools and BCFtools were distributed ![]() Your specified prefix, so you may wish to add this directory to your $PATH: export PATH =/where/to/install/bin: $PATH # for sh or bash users setenv PATH /where/to/install/bin:$PATH # for csh users Historical SAMtools/BCFtools 0.1.x releases The executable programs will be installed to a bin subdirectory under See INSTALL in each of the source directories for further details. Building and installingīuilding each desired package from source is very simple: cd samtools-1.x # and similarly for bcftools and htslib New releases are announced on the samtools mailing lists and by Twitter. Or see the additional instructions in INSTALL to install them from a So you may also want to build and install HTSlib to get these utilities, biology/htslib: Update to 1.12 biology/samtools: Update to 1.12 biology/bcftools: Update to 1.12 Numerous enhancements, performance improvements, and bug fixes since 1. HTSlib also provides the bgzip, htsfile, and tabix utilities, If you are writing your own programs against the HTSlib API. HTSlib is also distributed as a separate package which can be installed ![]() The code uses HTSlib internally, but these source packages contain their ownĬopies of htslib so they can be built independently. SAMtools and BCFtools are distributed as individual packages.
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