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Revision 88 - Directory Listing
Modified Tue Jan 15 22:11:30 2019 UTC (21 months, 1 week ago) by aloraine
Add description for new genome versions ce11, chlSab2, C. albicans

Revision 87 - Directory Listing
Modified Fri Dec 21 18:14:12 2018 UTC (22 months ago) by aloraine
Add zebrafish May 2017 genome and annotations

Revision 86 - Directory Listing
Modified Mon Dec 10 20:02:12 2018 UTC (22 months, 2 weeks ago) by aloraine
Add HEADER.md for rat & cow; Fix error

Revision 85 - Directory Listing
Modified Mon Dec 10 19:58:13 2018 UTC (22 months, 2 weeks ago) by aloraine
Add bosTaur8 from UCSC Genome Bioinformatics

Revision 84 - Directory Listing
Modified Wed Nov 7 23:17:59 2018 UTC (23 months, 2 weeks ago) by aloraine
Add description for potato, budding yeast, copied from contents.txt

Revision 83 - Directory Listing
Modified Wed Nov 7 22:53:14 2018 UTC (23 months, 2 weeks ago) by aloraine
Add rat genome rn6

Revision 82 - Directory Listing
Modified Mon Nov 5 23:25:44 2018 UTC (23 months, 2 weeks ago) by aloraine
Add rn6 (rat)

Revision 81 - Directory Listing
Modified Sat Oct 27 01:49:24 2018 UTC (2 years ago) by aloraine
Fix typos. Improve wording - make more succinct

Revision 80 - Directory Listing
Modified Sat Oct 27 01:44:05 2018 UTC (2 years ago) by aloraine
Remove broken link to UCSC downloads page (it moved)

Revision 79 - Directory Listing
Modified Sat Oct 27 01:34:05 2018 UTC (2 years ago) by aloraine
Fix typo; Suggest that psl files may not be available for every assembly

Revision 78 - Directory Listing
Modified Sat Oct 27 01:26:56 2018 UTC (2 years ago) by aloraine
Explain contents of newly added mm7 genome version directory

Revision 77 - Directory Listing
Modified Sat Oct 27 01:22:16 2018 UTC (2 years ago) by aloraine
Add M_musculus_Aug_2005Mus musculus (Aug 2005) mouse (NCBI35/mm7) assembly

Revision 76 - Directory Listing
Modified Tue Oct 9 17:55:15 2018 UTC (2 years ago) by aloraine
Load Araport gene models instead of TAIR10 mRNA

Revision 75 - Directory Listing
Modified Thu Oct 4 16:27:04 2018 UTC (2 years ago) by aloraine
Support potato genome

Revision 74 - Directory Listing
Modified Thu Oct 4 16:26:23 2018 UTC (2 years ago) by aloraine
Add gene model annotations converted from http://solanaceae.plantbiology.msu.edu/data/PGSC_DM_V403_genes.gff.zip using gff3ToBedDetail.py from https://bitbucket.org/lorainelab/genomesource commit https://bitbucket.org/lorainelab/genomesource/commits/6ab3b3f9a0c903af27ff58a8347a86edc9a3b6af?at=master followed by sed command to change chromosome names from ST4.03chNN to chrNN to match genome sequence file

Revision 73 - Directory Listing
Modified Thu Oct 4 16:20:24 2018 UTC (2 years ago) by aloraine
Add v4.03 July 2011 sequence for potato genome assembly

Revision 72 - Directory Listing
Modified Thu Oct 4 16:17:53 2018 UTC (2 years ago) by aloraine
Remove Jan 2016 sequence, update chromosome listing file for Jul 2011 4.03 assembly, add annotations

Revision 71 - Directory Listing
Modified Thu Oct 4 15:49:27 2018 UTC (2 years ago) by aloraine
Add potato version 4.03 genome assembly from https://www.nature.com/articles/nature10158 and http://solanaceae.plantbiology.msu.edu

Revision 70 - Directory Listing
Modified Thu Oct 4 15:48:14 2018 UTC (2 years ago) by aloraine
Use version 4.03 released Jul 2011 instead

Revision 69 - Directory Listing
Modified Thu Oct 4 15:18:06 2018 UTC (2 years ago) by aloraine
Fix typo; Version 4.03 not version 4.04

Revision 68 - Directory Listing
Modified Wed Oct 3 15:02:04 2018 UTC (2 years ago) by aloraine
Adding potato v4.04 genome from SpudDB http://solanaceae.plantbiology.msu.edu

Revision 67 - Directory Listing
Modified Thu Sep 27 22:00:02 2018 UTC (2 years ago) by aloraine
Add link to quickload repo in viewvc

Revision 66 - Directory Listing
Modified Thu Sep 27 21:55:57 2018 UTC (2 years ago) by aloraine
Add configuration file for style; Assumes styling directory is in DocumentRoot

Revision 65 - Directory Listing
Modified Thu Sep 27 17:07:58 2018 UTC (2 years ago) by aloraine
Add Lotmaria passim, strain SF, Crithidia mellificae strain SF, whole genome shotgun sequencing project, genome assembly and annotations (files by Nowlan Freese)

Revision 64 - Directory Listing
Modified Thu Sep 27 17:02:57 2018 UTC (2 years ago) by aloraine
Add Zea Mays B73 RefGenv2 genome assembly and annotations, from Maize genome database

Revision 63 - Directory Listing
Modified Thu Sep 27 16:57:14 2018 UTC (2 years ago) by aloraine
Add Y_lipolytica genomes, collected from Genbank

Revision 62 - Directory Listing
Modified Thu Sep 27 16:53:23 2018 UTC (2 years ago) by aloraine
Add 12X March 2010 wine grape draft genome Vitis vinifera genome assembly

Revision 61 - Directory Listing
Modified Thu Sep 27 16:46:52 2018 UTC (2 years ago) by aloraine
Add Volvox carteri f. nagariensis, Eve Jul 2010 assembly, collected from Phytozome

Revision 60 - Directory Listing
Modified Thu Sep 27 16:44:53 2018 UTC (2 years ago) by aloraine
Add Thellungiella parvula (salt cress) v2, May 2012 genome assembly

Revision 59 - Directory Listing
Modified Thu Sep 27 16:21:12 2018 UTC (2 years ago) by aloraine
Add Thermococcus kodakaraensis May 2004 genome, collected from Genbank accession NC_006624

Revision 58 - Directory Listing
Modified Thu Sep 27 16:20:02 2018 UTC (2 years ago) by aloraine
Add Tribolium castaneum (March 2008) red flour beetle

Revision 57 - Directory Listing
Modified Thu Sep 27 16:10:12 2018 UTC (2 years ago) by aloraine
Add S. pombe (May 2012) fission yeast genome assembly and annotations

Revision 56 - Directory Listing
Modified Thu Sep 27 16:09:36 2018 UTC (2 years ago) by aloraine
Add Solanum lycopersicum (tomato) May 2012/SL2.40 genome assembly

Revision 55 - Directory Listing
Modified Thu Sep 27 16:03:02 2018 UTC (2 years ago) by aloraine
Add Solanum lycopersicum (tomato) May 2012/SL2.40 and Feb 2014/SL2.50 genome assemblies and annotations

Revision 54 - Directory Listing
Modified Thu Sep 27 15:59:21 2018 UTC (2 years ago) by aloraine
Add S. cerevisiae strain S288C (Apr 2011) budding yeast (sacCer3) genome assembly and annotations, collected from UCSC

Revision 53 - Directory Listing
Modified Thu Sep 27 15:54:40 2018 UTC (2 years ago) by aloraine
Add Sorghum bicolor v1.0 and v2.0 (June 2013) genome assemblies, collected from Phytozome

Revision 52 - Directory Listing
Modified Thu Sep 27 15:51:15 2018 UTC (2 years ago) by aloraine
Add Ricinis communis TIGR/JCVI v0.1 assembly, castor bean

Revision 51 - Directory Listing
Modified Thu Sep 27 15:37:21 2018 UTC (2 years ago) by aloraine
Add JGI4.2/xenTro3 Xenopus tropicalis genome, Nov 2009 genome assembly and annotations, collected from UCSC

Revision 50 - Directory Listing
Modified Thu Sep 27 15:35:20 2018 UTC (2 years ago) by aloraine
Add Rattus Norvegicus (Mar 2012) rat (RGSC 5.0/rn5) genome assembly collected from UCSC

Revision 49 - Directory Listing
Modified Thu Sep 27 15:32:16 2018 UTC (2 years ago) by aloraine
Add Strapdown js and css files for more user-friendly look in Web browsers

Revision 48 - Directory Listing
Modified Thu Sep 27 15:29:58 2018 UTC (2 years ago) by aloraine
Add Takifugu rubripes (Oct 2011) Fugu (FUGU5/fr3) genome assembly and annotations from UCSC

Revision 47 - Directory Listing
Modified Thu Sep 27 15:28:01 2018 UTC (2 years ago) by aloraine
Add Pan troglodytes (Oct 2010) chimpanzee (CGSC 2.1.3/panTro3) collected from UCSC

Revision 46 - Directory Listing
Modified Thu Sep 27 15:23:52 2018 UTC (2 years ago) by aloraine
Add Populus trichocarpa v2 and v3 genomes, collected from Phytozome

Revision 45 - Directory Listing
Modified Thu Sep 27 15:21:28 2018 UTC (2 years ago) by aloraine
Add Prunus persica v1 genome assembly, collected from Phytozome v7

Revision 44 - Directory Listing
Modified Thu Sep 27 15:19:32 2018 UTC (2 years ago) by aloraine
Add Physcomitrella patens Jan 2008 genome from CossMoss

Revision 43 - Directory Listing
Modified Thu Sep 27 15:15:02 2018 UTC (2 years ago) by aloraine
Add Oryza sativa japonica June 2009 and Oryza sativa japonica variety Os-Nipponbare-Reference-IRGSP-1.0 genome assemblies and annotations

Revision 42 - Directory Listing
Modified Thu Sep 27 15:12:10 2018 UTC (2 years ago) by aloraine
Add Nematostella vectensis, starlet sea anemone

Revision 41 - Directory Listing
Modified Thu Sep 27 15:11:05 2018 UTC (2 years ago) by aloraine
Add Ovis aries (Feb 2010) sheep (ISGC Ovis_aries_1/oviAri1) genome assembly, collected from UCSC

Revision 40 - Directory Listing
Modified Thu Sep 27 15:05:33 2018 UTC (2 years ago) by aloraine
Add Medicago truncatula Mt3.0 release from Phytozome v7

Revision 39 - Directory Listing
Modified Thu Sep 27 14:59:57 2018 UTC (2 years ago) by aloraine
Add mouse genomes mm8, mm9, mm10

Revision 38 - Directory Listing
Modified Thu Sep 27 14:50:39 2018 UTC (2 years ago) by aloraine
Add Malus domestica Borkh (GDDH13 Version 1.1) apple genome assembly and annotations

Revision 37 - Directory Listing
Modified Thu Sep 27 14:47:45 2018 UTC (2 years ago) by aloraine
Add Musa acuminata DH Pahang (Jan 2016) banana (v2) genome assembly and annotations

Revision 36 - Directory Listing
Modified Thu Sep 27 14:41:43 2018 UTC (2 years ago) by aloraine
Add Loxodonta africana (Jul 2009) elephant (loxAfr3), collected from UCSC

Revision 35 - Directory Listing
Modified Thu Sep 27 14:37:21 2018 UTC (2 years ago) by aloraine
Add Glycine max (soybean) Gmax_275_v2.0 genome assembly and annotations, collected from Phytozome in Feb. 2015

Revision 34 - Directory Listing
Modified Thu Sep 27 14:34:19 2018 UTC (2 years ago) by aloraine
Add Glycine max Glyma1 soybean genome assembly and annotations, collected from Phytozome

Revision 33 - Directory Listing
Modified Thu Sep 27 14:30:06 2018 UTC (2 years ago) by aloraine
Add Gallus gallus (Nov 2011) chicken (galGal4/ICGC Gallus-gallus-4.0) assembly and annotations, collected from UCSC

Revision 32 - Directory Listing
Modified Thu Sep 27 14:27:37 2018 UTC (2 years ago) by aloraine
Add Fragaria vesca (woodland strawberry) v1

Revision 31 - Directory Listing
Modified Thu Sep 27 14:20:07 2018 UTC (2 years ago) by aloraine
Add Felis catus (Sep 2011) cat (ICGSC Felis_catus 6.2/felCat5) genome assembly collected from UCSC

Revision 30 - Directory Listing
Modified Thu Sep 27 14:17:04 2018 UTC (2 years ago) by aloraine
Add HEADER (same as for UCSC genomes)

Revision 29 - Directory Listing
Modified Thu Sep 27 14:15:35 2018 UTC (2 years ago) by aloraine
Remove 2008 cat genome; re-order rows

Revision 28 - Directory Listing
Modified Thu Sep 27 14:13:07 2018 UTC (2 years ago) by aloraine
Add Escherichia coli K12-MG1655 assembly, collected from Genbank record http://www.ncbi.nlm.nih.gov/nuccore/49175990

Revision 27 - Directory Listing
Modified Thu Sep 27 14:11:41 2018 UTC (2 years ago) by aloraine
Add Equus caballus (Sep 2007) horse (equCab2) genome assembly and annotations

Revision 26 - Directory Listing
Modified Thu Sep 27 14:08:41 2018 UTC (2 years ago) by aloraine
Add Danio rerio (Jul 2010) zebrafish (danRer7/Zv9) assembly and annotations

Revision 25 - Directory Listing
Modified Thu Sep 27 14:02:56 2018 UTC (2 years ago) by aloraine
Add Drosophila melanogaster (Jul 2014) fruit fly (dmel_r6.03_FB2014_06) assembly, collected from FlyBase

Revision 24 - Directory Listing
Modified Thu Sep 27 14:00:32 2018 UTC (2 years ago) by aloraine
Add Drosophila melanogaster (Apr 2006) fruit fly (dm3/BDGP R5) assembly, collected from UCSC

Revision 23 - Directory Listing
Modified Thu Sep 27 13:58:58 2018 UTC (2 years ago) by aloraine
Add Dictyostelim discoideum (slime mold) May 2009 assembly and annotations, from DictyDB

Revision 22 - Directory Listing
Modified Thu Sep 27 13:57:07 2018 UTC (2 years ago) by aloraine
Add Camelina sativa (false flax) April 2014 assembly

Revision 21 - Directory Listing
Modified Thu Sep 27 13:55:37 2018 UTC (2 years ago) by aloraine
Add Chlamydomonas reinhardtii JGI v4 assembly

Revision 20 - Directory Listing
Modified Thu Sep 27 13:54:35 2018 UTC (2 years ago) by aloraine
Add Cavia porcellus (Feb 2008) guinea pig (cavPor3) assembly

Revision 19 - Directory Listing
Modified Thu Sep 27 13:50:44 2018 UTC (2 years ago) by aloraine
Add Carica papaya genome assembly, from Phytozome

Revision 18 - Directory Listing
Modified Thu Sep 27 13:48:26 2018 UTC (2 years ago) by aloraine
Add C elegans assembles: May 2008 (WS190/ce6) and Oct 2010 (WS220/ce10)

Revision 17 - Directory Listing
Modified Thu Sep 27 13:46:05 2018 UTC (2 years ago) by aloraine
Add Homo sapiens Mar 2006 NCBI36/hg18 assembly

Revision 16 - Directory Listing
Modified Thu Sep 27 13:41:08 2018 UTC (2 years ago) by aloraine
Add Bos taurus (Oct 2011) cow (Baylor Btau_4.6.1/bosTau7)

Revision 15 - Directory Listing
Modified Thu Sep 27 13:37:28 2018 UTC (2 years ago) by aloraine
Add Homo sapiens Mar 2006 NCBI36/hg18 assembly

Revision 14 - Directory Listing
Modified Thu Sep 27 13:32:54 2018 UTC (2 years ago) by aloraine
Add Brachypodium distachyon JGI v1.0 8x assembly

Revision 13 - Directory Listing
Modified Thu Sep 27 13:29:20 2018 UTC (2 years ago) by aloraine
Add TAIR8 genome assembly

Revision 12 - Directory Listing
Modified Thu Sep 27 13:27:26 2018 UTC (2 years ago) by aloraine
Add latest honeybee assembly Jan 2005 Baylor 2.0/apiMel2

Revision 11 - Directory Listing
Modified Thu Sep 27 13:19:16 2018 UTC (2 years ago) by aloraine
Add assemblies from www.candidagenome.org

Revision 10 - Directory Listing
Modified Wed Sep 26 22:23:41 2018 UTC (2 years ago) by aloraine
Add Feb 2009 GRCh37/hg19 human genome assembly

Revision 9 - Directory Listing
Modified Wed Sep 26 22:18:04 2018 UTC (2 years ago) by aloraine
Add latest human genome version, with annotations, collected by Nowlan Freese

Revision 8 - Directory Listing
Modified Wed Sep 26 22:01:04 2018 UTC (2 years ago) by aloraine
Describe contents

Revision 7 - Directory Listing
Modified Wed Sep 26 21:51:10 2018 UTC (2 years ago) by aloraine
Add 2008 budding yeast genome assembly, with annotations; Add contents file with available genomes

Revision 6 - Directory Listing
Modified Wed Sep 26 21:27:36 2018 UTC (2 years ago) by aloraine
Add latest panda genome assembly

Revision 5 - Directory Listing
Modified Wed Sep 26 21:15:00 2018 UTC (2 years ago) by aloraine
Add Arabidopsis lyrata genome assembly and annotations, from Phytozome

Revision 4 - Directory Listing
Modified Wed Sep 26 20:23:53 2018 UTC (2 years, 1 month ago) by aloraine
Add 2003 mosquito (malaria vector) genome assembly, EST, mRNA, and gene model annotations

Revision 3 - Directory Listing
Modified Wed Sep 26 20:21:58 2018 UTC (2 years, 1 month ago) by aloraine
Describe what a Quickload site is

Revision 2 - Directory Listing
Modified Wed Sep 26 20:18:10 2018 UTC (2 years, 1 month ago) by aloraine
Show this in place of a folder icon in IGB Available Data Sets browser

Revision 1 - Directory Listing
Added Wed Sep 26 18:26:11 2018 UTC (2 years, 1 month ago) by aloraine
Add Arabidopsis thaliana TAIR9/10 genome assembly sequence file and annotations

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