hyphaltip (Jason)

Name
Jason
Email
Website/Blog
http://fungalgenomes.org/blog
Company
University of California
Location
Riverside
Member Since
Jan 23, 2009 (11 months)

Following 16 githubbers and watching 15 repositories view all →

Public Repositories (8)

  • genome-scripts

    Genome Scripts used in fungal comparative genomics

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    Last updated Sat Jan 02 16:31:54 -0800 2010

  • fungaltools

    Misc scripts for fungal tools

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    Last updated Sat Jul 11 21:44:34 -0700 2009

  • otu_cluster

    Cluster OTUs based on % similarity, mostly scripts to pipeline into other tools

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    Last updated Thu Jul 09 14:46:27 -0700 2009

  • bioperl-live

    git-svn mirror of bioperl-live SVN trunk at svn://code.open-bio.org/bioperl/bioperl-live/trunk, i...

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    Last updated Mon Jun 29 14:56:12 -0700 2009

  • thesis

    Perl Code from Thesis

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    Last updated Sat Apr 11 16:40:45 -0700 2009

  • subopt-kaks

    Suboptimal alignments and Ka, Ks calculations

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    Last updated Tue Jan 27 14:31:15 -0800 2009

  • hyphaltip.github.com

    GitHub home for hyphaltip

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    Last updated Sat Jan 24 19:08:58 -0800 2009

  • short-read-db

    Database for shortreads and comparing overlap with genomic features

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    Last updated Fri Jan 23 15:23:07 -0800 2009

Public Activity feed

hyphaltip pushed to master at hyphaltip/genome-scripts Sat Jan 02 16:31:55 -0800 2010
HEAD is 0add101d961a1a26509b8ba21f0e2164f5c0d420
  • Jason Stajich committed 0add101d:
    handle HMMER3 and alternative gene lookup (by locus_tag) in event protein name doesn't match
hyphaltip pushed to master at hyphaltip/genome-scripts Thu Dec 31 07:37:55 -0800 2009
HEAD is 5b5723d7509c5608375cf86661e8643df3a291f1

2 commits »

hyphaltip pushed to master at hyphaltip/genome-scripts Thu Dec 31 06:46:24 -0800 2009
HEAD is 53e162121c4dd02f10960bfe236a08d6b781478d
  • Jason Stajich committed 53e16212:
    shift coordinates when CDS starts in frame-offset
hyphaltip pushed to master at hyphaltip/genome-scripts Sat Dec 12 11:11:21 -0800 2009
HEAD is 147608d54d40888449870bfd0ac34b4a890b2de4

3 commits »

hyphaltip pushed to master at hyphaltip/genome-scripts Sat Dec 12 11:07:37 -0800 2009
HEAD is c5fd51772a6ebd56b67cb9da91ba47cb7574711b
  • Jason Stajich committed c5fd5177:
    process pileup output and report overlapping genes
hyphaltip pushed to master at hyphaltip/genome-scripts Wed Dec 02 17:43:47 -0800 2009
HEAD is 6aa43e8a008099d45f76b6c08ba23b1a25e67aa5
  • Jason Stajich committed 6aa43e8a:
    short read summarizing from SOAP data based on either size class or what features overlap in genome (Bio::DB::SeqFeature::Store as annotationdb)
hyphaltip pushed to master at hyphaltip/genome-scripts Wed Nov 25 14:37:39 -0800 2009
HEAD is 99eda637441c25d6c029f8d40ae1cae0c60ef3b4
  • Jason Stajich committed 99eda637:
    some more commented code
hyphaltip pushed to master at hyphaltip/genome-scripts Wed Nov 25 14:29:03 -0800 2009
HEAD is cf6b52a438d28fe10b5cfb9d02e44560dd928814
  • Jason Stajich committed cf6b52a4:
    typo spelling
hyphaltip pushed to master at hyphaltip/genome-scripts Wed Nov 25 14:27:42 -0800 2009
HEAD is 7e01b7b2fe76b4e4383b9789c12563f7f7e332ab

2 commits »

hyphaltip pushed to master at hyphaltip/genome-scripts Wed Nov 25 14:22:27 -0800 2009
HEAD is 5f30b990359c72cbcb542079f0c8d925192a3607
  • Jason Stajich committed 5f30b990:
    transfer annotation between assemblies, species, etc using Mercator synteny blocks
hyphaltip pushed to master at hyphaltip/genome-scripts Wed Nov 25 13:07:01 -0800 2009
HEAD is e5eb94258e7ca6f541b2837b67fcc3548bd5d06e

2 commits »

hyphaltip pushed to master at hyphaltip/genome-scripts Sun Nov 22 11:22:17 -0800 2009
HEAD is 11c43c08a162c9cc082d73576c609406d4142c47
  • Jason Stajich committed 11c43c08:
    some phylogenetic tools and data summary
hyphaltip pushed to master at hyphaltip/genome-scripts Tue Nov 10 23:41:17 -0800 2009
HEAD is bde75ab7ee9f78b3acaee3e9dbbf5da9cfdeb9a5
hyphaltip created gist: 202528 Mon Oct 05 15:15:51 -0700 2009
# concat multiple nexus formatted files into one nexus format file # assuming sequence IDs are th...