Download Latest Version FragGeneScan1.32.tar.gz (38.3 MB)
Email in envelope

Get an email when there's a new version of FragGeneScan

Home
Name Modified Size InfoDownloads / Week
README.txt 2024-12-19 2.2 kB
0
FragGeneScan1.32.tar.gz 2024-12-19 38.3 MB
1 1 weekly downloads
FragGeneScan1.31.tar.gz 2018-07-26 39.8 MB
1 1 weekly downloads
FragGeneScan1.30.tar.gz 2016-04-25 38.0 MB
0
FragGeneScan1.20.tar.gz 2015-08-13 11.5 MB
0
FragGeneScan1.19.tar.gz 2014-08-07 11.4 MB
0
FragGeneScan1.18.tar.gz 2014-05-05 11.5 MB
0
FragGeneScan1.17.tar.gz 2013-11-05 11.5 MB
0
FragGeneScan1.16.tar.gz 2013-11-05 11.5 MB
0
Totals: 9 Items   173.5 MB 2 
FragGeneScan1.32: Released on Dec 19, 2024
    * What's new in this release:
      This release incorporated the changes that Jeffrey Barrick made so FragGeneScan can be run on MacOS; 
      codes are cleaned up a little bit;
      some of the remaining functions in run_FragGeneScan.pl are now integrated into the FragGeneScan main function so this perl is no longer needed.  
FragGeneScan1.31: Released on July 26, 2018
    * What's new in this release:
      revised the program so that it does't output incomplete end codons in the gene sequences (*.ffn file)
FragGeneScan1.30: Released on April 25, 2016
    * What's new in this release: fixed a few bugs, and
      improved the codes so that FragGeneScan runs a lot faster.
    * For gene prediction in short reads (-complete=0), the new version is
      about several times faster than the old releases.
    * For gene prediction in large files of assembly contigs (and whole genomes),
      the running time could be reduced from days to a few mins.
    * How the speedup was achieved?
      the older versions call post_process.pl to refine the start codons,
      which could be extremely slow.
      verion 1.30 removes post_process.pl, and implements this function in the c programs.
    * Bugs fixed: the start codons (and Mets) are added to predicted proteins (the ffn & faa files).
FragGeneScan1.20: Bug fixed by Yu-Wei. The bug may cause inconcistency between the gff and ffn/faa files for -complete=1 mode.
FragGeneScan1.19: Thread support added. Fixed a few memory leaks.
FragGeneScan1.18: Bug fixed by Yu-Wei (/* adjustment based on probability distribution */ for End' State)
FragGeneScan1.17: Fixed couple of bugs related to the input sequence length. Added script to convert output to gff format.
FragGeneScan1.16: add an option for contigs (-complete=1 -train=complete)
FragGeneScan1.15: fix the problem with lowercase sequence input
FragGeneScan1.14: fix the problem of 0-length sequences with head in a input file
FragGeneScan1.10: retrains HMM parameter
FragGeneScan1.03: allocates more memory to the predicted genes for reporting. This allows longer genes (upto 300000 bp) to be reported
Source: README.txt, updated 2024-12-19