NAME

       rapmap_pseudoindex - rapmap module to build a k-mer-based index

SYNOPSIS

       rapmap pseudoindex [-k <positive integer less than 32>] -i <path> -t <path> [--] [--version] [-h]

DESCRIPTION

       RapMap Indexer

       RapMap  is  a testing ground for ideas in quasi-mapping / (lightweight / pseudo) transcriptome alignment.
       That means that, at this point, it is somewhat experimental. The develop  branch  will  have  the  latest
       improvements  and  additions, but is not guaranteed to be stable between commits. Breaking changes to the
       master branch will be accompanied by a tag to the version before the breaking change.  Currently,  RapMap
       is  a  stand-alone  quasi-mapper  that  can  be  used  with other tools. It is also being used as part of
       Sailfish and Salmon. Eventually, the hope is to create and stabilize an API so that it can be used  as  a
       library from other tools.

OPTIONS

       -k, --klen <positive integer less than 32>
              The length of k-mer to index

       -i, --index <path>
              (required) The location where the index should be written

       -t, --transcripts <path>
              (required) The transcript file to be indexed

       --, --ignore_rest
              Ignores the rest of the labeled arguments following this flag.

       --version
              Displays version information and exits.

       -h, --help
              Displays usage information and exits.

AUTHOR

       This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage
       of the program.