---
name: gmap
version: 2006.04.21
origin: biology/gmap
comment: A Genomic Mapping and Alignment Program for mRNA and EST Sequences
arch: freebsd:9:x86:64
www: http://www.gene.com/share/gmap
maintainer: rpz@cse.wustl.edu
prefix: /usr/local
licenselogic: single
flatsize: 574696
desc: |
  A standalone program for mapping and aligning cDNA sequences to a
  genome. The program maps and aligns a single sequence with minimal
  startup time and memory requirements, and provides fast batch
  processing of large sequence sets. The program generates accurate
  gene structures, even in the presence of substantial polymorphisms
  and sequence errors, without using probabilistic splice site models.
  Methodology underlying the program includes a minimal sampling
  strategy for genomic mapping, oligomer chaining for approximate
  alignment, sandwich DP for splice site detection, and microexon
  identification with statistical significance testing.

  WWW: http://www.gene.com/share/gmap
categories: [biology]
files:
  /usr/local/bin/fa_coords: c05daf92666b8675cffc1d1009153b38b49d97494f06710780f5b1e22c16c6e9
  /usr/local/bin/get-genome: 67c7568abc7422079d1a8319d313a021d33e12bf727389170742e74481d1fb85
  /usr/local/bin/gmap: bfb11655fdaec58d755cc60c860eb39d6b78a54ac02ef980a2631d4e7329b1d9
  /usr/local/bin/gmap_compress: b7b2afa97212f96eb904dec26bbe21ab72830c9a4db03e4ce5c9e38983e057a2
  /usr/local/bin/gmap_process: 7bd77c798552308f681b175d03864321a5c57919fd04ce2b91704f212237bb77
  /usr/local/bin/gmap_setup: f4c05ae54b565ca6fbc0fd4d0add9dc86d3eb57d4884345eebb6222f06648cfe
  /usr/local/bin/gmap_uncompress: ad47f9189c31647d6d2d7b88a5d488ed0144d11e44200c5c9b395d735c087466
  /usr/local/bin/gmapindex: bf3521c60cd41b19ba774774537eaaa5717af3fcad07a10b892ec7fcb5304391
  /usr/local/bin/iit_dump: dc83ffd6f67ae575604ce56c56d40bf3f8fe5d50101fb6ee1635c6d1fd699000
  /usr/local/bin/iit_get: 762580b373c308f56e892edb8242e01401316ece4245817edfa051f385d67fb8
  /usr/local/bin/iit_store: 985a0edbd10cdbc7da745d686f33cae467109104386c69e2cee8f9d46688b054
  /usr/local/bin/md_coords: 5743d3db6284e47294fcf4f70affa2019c2a414da17e3e4d684103efd59247fe
scripts: {}
