NAME

       needle -

DESCRIPTION

       Needle  allows  you  to  build  an  Interleaved Bloom Filter (IBF) with the command ibf or
       estimate the expression of transcripts with the command estimate.

SUBCOMMANDS

       This program must be invoked with one of the following subcommands:
       - count
       - delete
       - estimate
       - genome
       - ibf
       - ibfmin
       - insert
       - insertmin
       - minimiser

       See the respective help page for further details (e.g. by calling needle count -h).

       The following options below belong to the top-level parser and need to be specified before
       the  subcommand key word. Every argument after the subcommand key word is passed on to the
       corresponding sub-parser.

OPTIONS

   Basic options:
       -h, --help
              Prints the help page.

       -hh, --advanced-help
              Prints the help page including advanced options.

       --version
              Prints the version information.

       --copyright
              Prints the copyright/license information.

       --export-help (std::string)
              Export the help page information. Value must be one of [html, man].

VERSION

       Last update: 2024-11-07
       needle version: 1.0.3
       SeqAn version: 3.3.0

URL

       https://github.com/seqan/needle

LEGAL

       needle Copyright: BSD 3-Clause License
       Author: Mitra Darvish
       SeqAn Copyright: 2006-2023 Knut Reinert, FU-Berlin; released under the 3-clause BSDL.
       In your academic works please cite: Needle:  a  fast  and  space-efficient  prefilter  for
       estimating  the  quantification of very large collections of expression experiments; Mitra
       Darvish, Enrico Seiler, Svenja Mehringer, René Rahn,  and  Knut  Reinert;  Bioinformatics,
       Volume     38,     Issue     17,    1    September    2022,    Pages    4100-4108.    doi:
       https://doi.org/10.1093/bioinformatics/btac492
       For full copyright and/or warranty information see --copyright.