Index of /genome/Daphnia_pulex/dpulex_jgi060412

      Name                    Last modified       Size  Description

[DIR] Parent Directory 19-Jul-2007 17:33 - [DIR] gff/ 29-Aug-2006 15:44 - [DIR] genome-assembly/ 25-Jul-2006 19:19 - [DIR] genetic-map/ 25-Jul-2006 19:18 - [DIR] gene-predictions/ 25-Jul-2006 19:17 -

JGI JAZZ assembly 2006-04-12 (8/9X) and annotations for Daphnia pulex:

est/ EST data set (JGI 2005)

gff/Annotations:

GFF - Gene finding format 
Assembly scaffolds, Genetic markers
Eukaryote model organism genes mapped to Daphnia genome
Gene prediction locations
genome-assembly/Genome assembly:
dpulex_jgi060412.fa.gz   -- JGI JAZZ main scaffolds fasta
dpulex-scaffolds.gff     -- scaffolds information as GFF
gene-predictions/Gene Predictions:
snap-dpulex_jgi060412.gff.gz  -- SNAP gene predictions, hmm bootstrapped on Dpulex genome from fly
  " .aa.gz -- amino predictions
  " .tr.gz -- transcript predictions fasta
snap-dpulex_jgi060412.hmm    -- SNAP HMM predictor generated from bootstrap process
genetic-map/Genome - Genetic Map correspondence:
dpulex-mapid_marker2.txt -- table of marker genetic map locations
dpulex-mapid_marker2s.fa -- marker fasta
dpulex_jgi060412-mapid.megablast -- marker blast to scaffolds.fa
dpulex-scaffold-map1.txt -- scaffold x genetic map from megablast results
dpulex-scaffold-map2.txt --  " (sorted by scaffold)