strapdown: '/styling/strapdown/v/0.2/strapdown.js'}; 
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<title>Integrated Genome Browser QuickLoad Site</title>
<body>
<h1>Welcome to IGB Quickload Main</h1>
<p>
Data available here are configured for visualization
in the <a href="https://bioviz.org">Integrated Genome Browser</a>.
These data include gene annotation files and genome information for 
many plant, animal, and microbial species.</p>
<p>When IGB launches, it contacts a deployed copy of Quickload Main and retrieves
a file "<a href="./contents.txt">contents.txt</a>" that lists all genome assemblies available for
display in IGB.
</p>
<p>
The data here are version-controlled using subversion, a centralized version-control system that
attaches versions to individual files and supports checking out parts of the repository. To browse
the subversion repository hosting these data, visit 
<a href="https://svn.bioviz.org/viewvc/genomes/quickload">https://svn.bioviz.org/viewvc/genomes/quickload/</a>.</p>
<h2>About Quickload</h2>
<p>
A Quickload site is a simple system of directories, sequence files, and
annotation files formatted for visualization in Integrated Genome Browser. It's a convenient
way to share data sets with other labs and with the public. IGB can display the contents of
many Quickload sites at the same time. This makes it easy to compare data across experiments.
This makes IGB an "integrated" genome browser. 
</p>
<h2>About this site</h2>
<p>
This site is a checked-out copy of Quickload Main subversion repository, deployed in the "htdocs" directory
of the apache2 Web server. 
 </p>
<p>
To make the Quickload data contents easy to browse, the repository also includes styling configurations using
javascript and CSS. 
</p>

<h2>How to get a copy</h2> 
<p>Install svn and check out the repository with a read-only user:</p>
<p>`svn co --username=guest https://svn.bioviz.org/repos/genomes/quickload`</p>
<p>When prompted, enter username "guest" and password "guest".</p> 

<h2>Test a checked-out copy in Integrated Genome Browser</h2>
<p>Open Integrated Genome Browser and select <B>Preferences</B> from the <B>File</B> menu. Select the <B>Data Sources</B> tab. Add the checked-out root directory as a new Quickload Data Source. The folder containing the file "contents.txt" is the Quickload root directory.</p>
<h2>Add too big 2bit files</h2>
<p>Some genome sequence files are so large that they are not version-controlled. One such file
is `T_aestivum_Aug_2018.2bit`, a wheat genome assembly sequence file. To enable IGB users to view
sequence data from this genome, add the file to directory `quickload/T_aestivum_Aug_2018`.</p> 
<hr/>
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[ICO]NameLast modifiedSizeDescription
[PARENTDIR]Parent Directory  -  
[TXT]contents.txt2024-07-13 17:58 6.3KAvailable genome assemblies and their titles
[TXT]synonyms.txt2024-07-13 17:58 458 IGB synonym file
[TXT]species.txt2024-07-13 17:58 442 Taxonomic and common names for species, shown in IGB species menu
[DIR]R_varieornatus_YOKOZUNA-1_Nov_2016/2024-07-13 17:58 - Ramazzottius varieornatus strain YOKOZUNA-1 (Nov 2016) water bear (Rvar_4.0 assembly)
[DIR]S_lycopersicum_Sep_2019/2024-06-04 09:51 - Solanum lycopersicum (Sep 2019) tomato (SL4.0)
[DIR]S_lycopersicum_Jun_2022/2024-06-04 09:51 - Solanum lycopersicum (Jun 2022) tomato (SL5.0)
[DIR]D_melanogaster_Aug_2014/2024-06-04 09:51 - Drosophila melanogaster (Aug 2014) fruit fly (BDGP Release 6 + ISO1 MT/dm6)
[DIR]H_exemplaris_Z151_Apr_2017/2024-05-01 15:23 - Hypsibius exemplaris strain Z151 (Apr 2017) water bear (nHd_3.1 assembly)
[DIR]S_pombe_May_2012/2024-04-09 15:35 - S. pombe (May 2012) fission yeast
[DIR]T_aestivum_Aug_2018/2023-07-28 09:57 - Triticum aestivum (IWGSC v1)
[DIR]R_norvegicus_Nov_2020/2023-07-24 18:36 - Rattus norvegicus (Nov 2020) rat (mRatBN7.2/rn7)
[DIR]M_musculus_Jun_2020/2023-07-24 18:36 - Mus musculus (Jun 2020) mouse (GRCm39/mm39)
[DIR]L_passim_Apr_2014/2023-06-16 14:35 - Lotmaria passim, strain SF, Crithidia mellificae strain SF, whole genome shotgun sequencing project
[DIR]H_sapiens_Mar_2006/2023-06-16 14:35 - Homo sapiens hg18 (Genome Reference Consortium GRCh36)
[DIR]D_pulex_Sep_2016/2023-06-16 14:32 - Daphnia pulex PA42 v3.0 (Sep 2016) water flea
[DIR]M_musculus_Jul_2007/2023-06-16 14:32 - Mus musculus (Jul 2007) mouse (NCBI37/mm9)
[DIR]S_bicolor_Jan_2009/2023-06-16 14:29 - Sorghum bicolor
[DIR]C_papaya_Aug_2010/2023-06-16 14:28 - Papaya
[DIR]P_persica_Apr_2010/2023-06-16 14:28 - Peach v1 genome assembly
[DIR]T_parvula_May_2012/2023-06-16 14:28 - Thellungiella parvula (salt cress) v2, May 2012
[DIR]B_distachyon_Aug_2010/2023-06-16 14:27 - Brachypodium distachyon (a model grass) JGI v1.0 8x assembly
[DIR]F_albicollis_Jun_2013/2023-06-16 14:27 - Ficedula albicollis (Jun 2013) collared flycatcher (FicAlb1.5)
[DIR]A_lyrata_Apr_2011/2023-06-16 14:26 - Arabidopsis lyrata JGI v1.0 assembly
[DIR]C_sativa_CBDRx_Dec_2018/2023-06-16 14:26 - Cannabis sativa CBDRx Dec 2018
[DIR]D_rerio_Jul_2010/2023-06-16 14:25 - Danio rerio (Jul 2010) zebrafish (danRer7/Zv9)
[DIR]C_porcellus_Feb_2008/2023-06-16 14:24 - Cavia porcellus (Feb 2008) guinea pig (cavPor3)
[DIR]Y_lipolytica_CLIB122_Jul_2004/2023-06-16 14:21 - Yarrowia lipolytica CLIB122 (Jul 2004) Assembly GCA_000002525.2
[IMG]favicon.ico2023-06-16 14:21 7.1KIcon IGB displays for this data source in the Data Access tab
[DIR]M_musculus_Aug_2005/2023-06-16 14:21 - Mus musculus (Aug 2005) mouse (NCBI35/mm7)
[DIR]F_catus_Sep_2011/2023-06-16 14:19 - Felis catus (Sep 2011) cat (ICGSC Felis_catus 6.2/felCat5)
[DIR]A_thaliana_Apr_2008/2023-06-16 14:17 - Arabidopsis thaliana TAIR8 genome assembly
[DIR]C_sabaeus_Mar_2014/2023-06-16 14:17 - Chlorocebus sabaeus (Mar 2014) African green monkey (Chlorocebus_sabaeus 1.1/chlSab2)
[DIR]V_vinifera_Mar_2010/2023-06-16 14:14 - Wine grape 12x assembly
[DIR]G_max_Aug_2010/2023-06-16 14:13 - Soybean Glyma1
[DIR]C_reinhardtii_Nov_2010/2023-06-16 14:13 - Chlamy (an algal genome)
[DIR]H_sapiens_May_2004/2023-06-16 14:12 - Homo sapiens hg17 (Genome Reference Consortium GRCh35)
[DIR]O_sativa_japonica_Oct_2011/2023-06-16 14:10 - Rice, japonic variety Os-Nipponbare-Reference-IRGSP-1.0 assembly
[DIR]P_trichocarpa_Aug_2012/2023-06-16 14:09 - Black cottonwood (poplar)
[DIR]P_patens_Jan_2018/2023-06-16 14:09 - Physcomitrella patens (moss) v3.3
[DIR]R_norvegicus_Mar_2012/2023-06-16 14:09 - Rattus norvegicus (Mar 2012) rat (RGSC 5.0/rn5)
[DIR]A_gambiae_Feb_2003/2023-06-16 14:06 - Anopheles gambiae (Feb 2003) mosquito (anoGam1/IAGP v.MOZ2)
[DIR]Y_lipolytica_PO1f_May_2014/2023-06-16 14:06 - Yarrowia lipolytica PO1f (May 2014) Assembly GCA_000590845.2
[DIR]C_albicans_WO-1_Dec_2013/2023-06-16 14:06 - Candida albicans WO-1 (Dec 2013)
[DIR]C_elegans_Feb_2013/2023-06-16 14:06 - C. elegans Feb 2013 (WBcel235/ce11)
[DIR]C_elegans_May_2008/2023-06-16 14:05 - C. elegans May 2008 WS190/ce6
[DIR]H_sapiens_Feb_2009/2023-06-16 14:05 - Homo sapiens hg19 (Genome Reference Consortium GRCh37)
[DIR]C_albicans_WO-1_Jul_2010/2023-06-16 14:01 - Candida albicans
[DIR]D_magna_Jan_2019/2023-06-16 14:01 - Daphnia magna SK v1.0 (Jan 2019) water flea
[DIR]H_sapiens_Dec_2013/2023-06-16 14:01 - Homo sapiens hg38 (Genome Reference Consortium GRCh38)
[DIR]T_rubripes_Oct_2011/2023-06-16 13:53 - Takifugu rubripes (Oct 2011) Fugu (FUGU5/fr3)
[DIR]E_coli_K12-MG1655_Jan_2012/2023-06-16 13:53 - Escherichia coli K12-MG1655
[DIR]D_pulex_Feb_2011/2023-06-16 13:52 - Daphnia pulex TCO v1.0 (Feb 2011) water flea
[DIR]Z_mays_B73_Mar_2010/2023-06-16 13:51 - Zea mays B73 RefGen_v2 assembly
[DIR]P_patens_Jan_2008/2023-06-16 13:49 - Physcomitrella patens (moss)
[DIR]M_acuminata_DH_Pahang_Jan_2016/2023-06-16 13:49 - Musa acuminata DH Pahang (Jan 2016) banana (v2)
[DIR]D_melanogaster_Jul_2014/2023-06-16 13:49 - Drosophila melanogaster (July 2014) fruit fly (dmel_r6.03_FB2014_06)
[DIR]N_vectensis_Jun_2007/2023-06-16 13:48 - Nematostella vectensis, starlet sea anemone
[DIR]L_africana_Jul_2009/2023-06-16 13:48 - Loxodonta africana (Jul 2009) elephant (loxAfr3)
[DIR]C_albicans_SC5314_Jun_2014/2023-06-16 13:45 - Candida albicans
[DIR]D_rerio_May_2017/2023-06-16 13:45 - Danio rerio (May 2017) zebrafish (GRCz11/danRer11)
[DIR]O_sativa_japonica_Jun_2009/2023-06-16 13:44 - Rice, japonic variety
[DIR]O_aries_Feb_2010/2023-06-16 13:43 - Ovis aries (Feb 2010) sheep (ISGC Ovis_aries_1/oviAri1)
[DIR]M_domestica_Borkh_Jun_2017/2023-06-16 13:42 - Malus domestica (Jun 2017) apple
[DIR]D_melanogaster_Apr_2006/2023-06-16 13:41 - Drosophila melanogaster (Apr 2006) fruit fly (dm3/BDGP R5)
[DIR]X_tropicalis_Nov_2009/2023-06-16 13:41 - Xenopus tropicalis JGI 4.2/xenTro3
[DIR]B_taurus_Oct_2011/2023-06-16 13:40 - Bos taurus (cow) bosTau7 Oct 2011 assembly
[DIR]S_bicolor_Jun_2013/2023-06-16 13:37 - Sorghum bicolor
[DIR]T_kodakaraensis_KOD1_May_2004/2023-06-16 13:36 - Thermococcus kodakaraensis
[DIR]R_communis_May_2008/2023-06-16 13:36 - Castor bean
[DIR]D_magna_Apr_2010/2023-06-16 13:36 - Daphnia magna Xinb3 v2.4 (Apr 2010) water flea
[DIR]G_max_Jan_2014/2023-06-16 13:36 - Soybean Glyma2
[DIR]C_sativa_DH55_Apr_2014/2023-06-16 13:35 - Camelina, false flax, an oilseed crop
[DIR]S_cerevisiae_Jun_2008/2023-06-16 13:34 - S. cerevisiae strain S288C (Jun 2008) budding yeast (sacCer2)
[DIR]F_vesca_Sep_2011/2023-06-16 13:34 - Fragaria vesca (woodland strawberry) v1.1
[DIR]M_musculus_Feb_2006/2023-06-16 13:34 - Mus musculus (Feb 2006) mouse (NCBI36/mm8)
[DIR]A_rostrata_Oct_2016/2023-06-16 13:31 - Anguilla rostrata
[DIR]C_albicans_SC5314_Nov_2008/2023-06-16 13:30 - Candida albicans
[DIR]T_castaneum_Mar_2008/2023-06-16 13:30 - Tribolium castaneum (March 2008) red flour beetle
[DIR]A_melanoleuca_Dec_2009/2023-06-16 13:30 - Ailuropoda melanoleuca (Dec 2009) giant panda (ailMel1/BGI-Shenzhen AilMel 1.0)
[DIR]M_musculus_Dec_2011/2023-06-16 13:27 - Mus musculus (Dec 2011) mouse (GRCm38/mm10)
[DIR]S_lycopersicum_May_2012/2023-06-16 13:25 - Solanum lycopersicum (May 2012) tomato (SL2.40)
[DIR]E_caballus_Sep_2007/2023-06-16 13:24 - Equus caballus (Sep 2007) horse (equCab2)
[DIR]P_trichocarpa_Jan_2010/2023-06-16 13:23 - Black cottonwood (poplar)
[DIR]M_truncatula_Mar_2009/2023-06-16 13:23 - Medicago truncatula
[DIR]A_thaliana_Jun_2009/2023-06-16 13:23 - Arabidopsis thaliana TAIR9, TAIR10 genome assembly
[DIR]B_taurus_Jun_2014/2023-06-16 13:22 - Bos taurus (Jun 2014) cow (UMD_3.1.1/bosTau8)
[DIR]S_cerevisiae_Apr_2011/2023-06-16 13:21 - S. cerevisiae strain S288C (Apr 2011) budding yeast (sacCer3)
[DIR]P_troglodytes_Oct_2010/2023-06-16 13:21 - Pan troglodytes (Oct 2010) chimpanzee (CGSC 2.1.3/panTro3)
[DIR]Y_lipolytica_WSH-Z06_Mar_2014/2023-06-16 13:19 - Yarrowia lipolytica WSH-Z06 (Mar 2014) Assembly GCA_000613155.1
[DIR]S_tuberosum_DM_Jul_2011/2023-06-16 13:19 - Solanum tuberosum Group Phureja clone DM1-3 (potato) v4.03
[DIR]A_gambiae_Oct_2006/2023-06-16 13:18 - Anopheles gambiae (Oct 2006) mosquito (AgamP3/anoGam3)
[DIR]A_mellifera_Jan_2005/2023-06-16 13:18 - Apis mellifera (honeybee) Jan 2005 (apiMel2/Baylor College of Medicine HGSC v.Amel_2.0 )
[DIR]V_carteri_Jul_2010/2023-06-16 13:18 - Volvox
[DIR]C_elegans_Oct_2010/2023-06-16 13:18 - C. elegans Oct 2010 (WS220/ce10)
[DIR]R_norvegicus_Jul_2014/2023-06-16 13:18 - Rattus norvegicus (Jul 2014) rat (RGSC 6.0/rn6)
[DIR]S_lycopersicum_Feb_2017/2023-06-16 13:16 - Solanum lycopersicum (Feb 2017) tomato (SL3.0)
[DIR]D_discoideum_Ax4_May_2009/2023-06-16 13:15 - Slime mold
[DIR]X_tropicalis_Jul_2016/2023-06-16 13:15 - Xenopus tropicalis JGI 9.1/xenTro9
[DIR]G_gallus_Nov_2011/2023-06-16 13:15 - Gallus gallus (Nov 2011) chicken (galGal4/ICGC Gallus-gallus-4.0)
[DIR]S_lycopersicum_Feb_2014/2023-06-16 13:14 - Solanum lycopersicum (Feb 2014) tomato (SL2.50)
Apache/2.4.52 (Ubuntu) Server at igbquickload.org Port 80