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  -  
[DIR]G_max_Jan_2014/2025-08-12 15:23 - Soybean Glyma2
[DIR]S_lycopersicum_Feb_2014/2025-08-12 15:23 - Solanum lycopersicum (Feb 2014) tomato (SL2.50)
[DIR]S_lycopersicum_Feb_2017/2025-08-12 15:24 - Solanum lycopersicum (Feb 2017) tomato (SL3.0)
[DIR]C_sativa_DH55_Apr_2014/2025-08-12 15:24 - Camelina, false flax, an oilseed crop
[DIR]S_bicolor_Jun_2013/2025-08-12 15:24 - Sorghum bicolor
[DIR]M_domestica_Borkh_Jun_2017/2025-08-12 15:24 - Malus domestica (Jun 2017) apple
[DIR]F_catus_Sep_2011/2025-08-12 15:24 - Felis catus (Sep 2011) cat (ICGSC Felis_catus 6.2/felCat5)
[DIR]D_rerio_Jul_2010/2025-08-12 15:24 - Danio rerio (Jul 2010) zebrafish (danRer7/Zv9)
[DIR]C_porcellus_Feb_2008/2025-08-12 15:24 - Cavia porcellus (Feb 2008) guinea pig (cavPor3)
[DIR]O_sativa_japonica_Jun_2009/2025-08-12 15:24 - Rice, japonic variety
[DIR]C_albicans_SC5314_Jun_2014/2025-08-12 15:24 - Candida albicans
[DIR]A_albopictus_Jan_2024/2025-08-12 15:24 - Aedes albopictus (Jan 2024) Asian tiger mosquito (AalbF5)
[DIR]S_tuberosum_DM_Jul_2011/2025-08-12 15:24 - Solanum tuberosum Group Phureja clone DM1-3 (potato) v4.03
[DIR]M_acuminata_DH_Pahang_Jan_2016/2025-08-12 15:25 - Musa acuminata DH Pahang (Jan 2016) banana (v2)
[DIR]A_thaliana_Jun_2009/2025-08-12 15:25 - Arabidopsis thaliana TAIR9, TAIR10 genome assembly
[DIR]R_norvegicus_Mar_2012/2025-08-12 15:25 - Rattus norvegicus (Mar 2012) rat (RGSC 5.0/rn5)
[TXT]species.txt2025-08-12 15:25 11KTaxonomic and common names for species, shown in IGB species menu
[DIR]E_caballus_Sep_2007/2025-08-12 15:25 - Equus caballus (Sep 2007) horse (equCab2)
[DIR]S_lycopersicum_May_2012/2025-08-12 15:25 - Solanum lycopersicum (May 2012) tomato (SL2.40)
[DIR]M_musculus_Dec_2011/2025-08-12 15:25 - Mus musculus (Dec 2011) mouse (GRCm38/mm10)
[TXT]contents.txt2025-08-12 15:25 6.8KAvailable genome assemblies and their titles
[DIR]P_patens_Jan_2018/2025-08-12 15:25 - Physcomitrella patens (moss) v3.3
[DIR]H_exemplaris_Z151_Apr_2017/2025-08-12 15:25 - Hypsibius exemplaris strain Z151 (Apr 2017) water bear (nHd_3.1 assembly)
[DIR]A_rostrata_Oct_2016/2025-08-12 15:26 - Anguilla rostrata
[DIR]D_pulex_Sep_2016/2025-08-12 15:26 - Daphnia pulex PA42 v3.0 (Sep 2016) water flea
[DIR]M_musculus_Feb_2006/2025-08-12 15:26 - Mus musculus (Feb 2006) mouse (NCBI36/mm8)
[DIR]E_coli_K12-MG1655_Jan_2012/2025-08-12 15:26 - Escherichia coli K12-MG1655
[DIR]D_melanogaster_Aug_2014/2025-08-12 15:26 - Drosophila melanogaster (Aug 2014) fruit fly (BDGP Release 6 + ISO1 MT/dm6)
[DIR]H_sapiens_Dec_2013/2025-08-12 15:28 - Homo sapiens hg38 (Genome Reference Consortium GRCh38)
[DIR]R_norvegicus_Nov_2020/2025-08-12 15:28 - Rattus norvegicus (Nov 2020) rat (mRatBN7.2/rn7)
[DIR]R_communis_May_2008/2025-08-12 15:28 - Castor bean
[DIR]D_melanogaster_Apr_2006/2025-08-12 15:28 - Drosophila melanogaster (Apr 2006) fruit fly (dm3/BDGP R5)
[DIR]A_mellifera_Jan_2005/2025-08-12 15:28 - Apis mellifera (honeybee) Jan 2005 (apiMel2/Baylor College of Medicine HGSC v.Amel_2.0 )
[DIR]Y_lipolytica_CLIB122_Jul_2004/2025-08-12 15:28 - Yarrowia lipolytica CLIB122 (Jul 2004) Assembly GCA_000002525.2
[DIR]H_sapiens_T2T_Jan_2022/2025-08-12 15:28 - Homo sapiens T2T hs1 (T2T Consortium T2T-CHM13 v2.0)
[DIR]H_sapiens_Feb_2009/2025-08-12 15:29 - Homo sapiens hg19 (Genome Reference Consortium GRCh37)
[DIR]C_elegans_May_2008/2025-08-12 15:29 - C. elegans May 2008 WS190/ce6
[DIR]A_lyrata_Apr_2011/2025-08-12 15:29 - Arabidopsis lyrata JGI v1.0 assembly
[DIR]C_elegans_Feb_2013/2025-08-12 15:29 - C. elegans Feb 2013 (WBcel235/ce11)
[DIR]Y_lipolytica_PO1f_May_2014/2025-08-12 15:29 - Yarrowia lipolytica PO1f (May 2014) Assembly GCA_000590845.2
[DIR]L_africana_Jul_2009/2025-08-12 15:29 - Loxodonta africana (Jul 2009) elephant (loxAfr3)
[DIR]F_albicollis_Jun_2013/2025-08-12 15:29 - Ficedula albicollis (Jun 2013) collared flycatcher (FicAlb1.5)
[DIR]D_melanogaster_Jul_2014/2025-08-12 15:29 - Drosophila melanogaster (July 2014) fruit fly (dmel_r6.03_FB2014_06)
[DIR]B_distachyon_Aug_2010/2025-08-12 15:29 - Brachypodium distachyon (a model grass) JGI v1.0 8x assembly
[DIR]A_gambiae_Feb_2003/2025-08-12 15:29 - Anopheles gambiae (Feb 2003) mosquito (anoGam1/IAGP v.MOZ2)
[DIR]C_papaya_Aug_2010/2025-08-12 15:29 - Papaya
[DIR]T_castaneum_Mar_2008/2025-08-12 15:29 - Tribolium castaneum (March 2008) red flour beetle
[DIR]C_teleta_Jan_2013/2025-08-12 15:29 - Capitella teleta Jan 2013 (Capca1)
[DIR]Z_mays_B73_Mar_2010/2025-08-12 15:30 - Zea mays B73 RefGen_v2 assembly
[DIR]P_trichocarpa_Aug_2012/2025-08-12 15:30 - Black cottonwood (poplar)
[DIR]L_passim_Apr_2014/2025-08-12 15:30 - Lotmaria passim, strain SF, Crithidia mellificae strain SF, whole genome shotgun sequencing project
[DIR]F_vesca_Sep_2011/2025-08-12 15:30 - Fragaria vesca (woodland strawberry) v1.1
[DIR]S_lycopersicum_Jun_2022/2025-08-12 15:30 - Solanum lycopersicum (Jun 2022) tomato (SL5.0)
[DIR]O_sativa_japonica_Oct_2011/2025-08-12 15:31 - Rice, japonic variety Os-Nipponbare-Reference-IRGSP-1.0 assembly
[DIR]X_tropicalis_Jul_2016/2025-08-12 15:31 - Xenopus tropicalis JGI 9.1/xenTro9
[DIR]S_lycopersicum_Sep_2019/2025-08-12 15:31 - Solanum lycopersicum (Sep 2019) tomato (SL4.0)
[DIR]G_gallus_Nov_2011/2025-08-12 15:31 - Gallus gallus (Nov 2011) chicken (galGal4/ICGC Gallus-gallus-4.0)
[DIR]D_discoideum_Ax4_May_2009/2025-08-12 15:31 - Slime mold
[DIR]H_sapiens_May_2004/2025-08-12 15:31 - Homo sapiens hg17 (Genome Reference Consortium GRCh35)
[DIR]R_norvegicus_Jul_2014/2025-08-12 15:31 - Rattus norvegicus (Jul 2014) rat (RGSC 6.0/rn6)
[DIR]T_rubripes_Oct_2011/2025-08-12 15:31 - Takifugu rubripes (Oct 2011) Fugu (FUGU5/fr3)
[DIR]C_reinhardtii_Nov_2010/2025-08-12 15:31 - Chlamy (an algal genome)
[DIR]G_max_Aug_2010/2025-08-12 15:31 - Soybean Glyma1
[DIR]D_magna_Apr_2010/2025-08-12 15:31 - Daphnia magna Xinb3 v2.4 (Apr 2010) water flea
[DIR]C_sabaeus_Mar_2014/2025-08-12 15:31 - Chlorocebus sabaeus (Mar 2014) African green monkey (Chlorocebus_sabaeus 1.1/chlSab2)
[DIR]S_pombe_May_2012/2025-08-12 15:31 - S. pombe (May 2012) fission yeast
[DIR]O_aries_Feb_2010/2025-08-12 15:31 - Ovis aries (Feb 2010) sheep (ISGC Ovis_aries_1/oviAri1)
[DIR]O_latipes_Jul_2017/2025-08-12 15:31 - Oryzias latipes (Jul 2017) Japanese rice fish (Medaka) (ASM223467v1)
[DIR]D_rerio_May_2017/2025-08-12 15:31 - Danio rerio (May 2017) zebrafish (GRCz11/danRer11)
[DIR]Y_lipolytica_WSH-Z06_Mar_2014/2025-08-12 15:31 - Yarrowia lipolytica WSH-Z06 (Mar 2014) Assembly GCA_000613155.1
[DIR]N_vectensis_Jun_2007/2025-08-12 15:31 - Nematostella vectensis, starlet sea anemone
[DIR]S_cerevisiae_Apr_2011/2025-08-12 15:31 - S. cerevisiae strain S288C (Apr 2011) budding yeast (sacCer3)
[DIR]B_taurus_Jun_2014/2025-08-12 15:31 - Bos taurus (Jun 2014) cow (UMD_3.1.1/bosTau8)
[DIR]T_parvula_May_2012/2025-08-12 15:31 - Thellungiella parvula (salt cress) v2, May 2012
[DIR]M_truncatula_Mar_2009/2025-08-12 15:32 - Medicago truncatula
[DIR]P_persica_Apr_2010/2025-08-12 15:32 - Peach v1 genome assembly
[DIR]S_bicolor_Jan_2009/2025-08-12 15:32 - Sorghum bicolor
[DIR]D_pulex_Feb_2011/2025-08-12 15:32 - Daphnia pulex TCO v1.0 (Feb 2011) water flea
[DIR]H_sapiens_Mar_2006/2025-08-12 15:32 - Homo sapiens hg18 (Genome Reference Consortium GRCh36)
[DIR]S_cerevisiae_Jun_2008/2025-08-12 15:32 - S. cerevisiae strain S288C (Jun 2008) budding yeast (sacCer2)
[DIR]T_aestivum_Aug_2018/2025-08-12 15:32 - Triticum aestivum (IWGSC v1)
[DIR]C_elegans_Oct_2010/2025-08-12 15:32 - C. elegans Oct 2010 (WS220/ce10)
[DIR]D_magna_Jan_2019/2025-08-12 15:32 - Daphnia magna SK v1.0 (Jan 2019) water flea
[DIR]V_vinifera_Mar_2010/2025-08-12 15:32 - Wine grape 12x assembly
[DIR]R_varieornatus_YOKOZUNA-1_Nov_2016/2025-08-12 15:32 - Ramazzottius varieornatus strain YOKOZUNA-1 (Nov 2016) water bear (Rvar_4.0 assembly)
[DIR]V_carteri_Jul_2010/2025-08-12 15:32 - Volvox
[DIR]T_kodakaraensis_KOD1_May_2004/2025-08-12 15:32 - Thermococcus kodakaraensis
[DIR]B_taurus_Oct_2011/2025-08-12 15:32 - Bos taurus (cow) bosTau7 Oct 2011 assembly
[DIR]A_thaliana_Apr_2008/2025-08-12 15:32 - Arabidopsis thaliana TAIR8 genome assembly
[DIR]X_tropicalis_Nov_2009/2025-08-12 15:32 - Xenopus tropicalis JGI 4.2/xenTro3
[DIR]C_albicans_WO-1_Jul_2010/2025-08-12 15:32 - Candida albicans
[DIR]D_dama_Nov_2023/2025-08-12 15:32 - Dama dama (Nov 2023) Fallow deer (ASM3311817v1)
[DIR]M_musculus_Aug_2005/2025-08-12 15:32 - Mus musculus (Aug 2005) mouse (NCBI35/mm7)
[IMG]favicon.ico2025-08-12 15:33 7.1KIcon IGB displays for this data source in the Data Access tab
[DIR]C_sativa_CBDRx_Dec_2018/2025-08-12 15:33 - Cannabis sativa CBDRx Dec 2018
[DIR]C_albicans_WO-1_Dec_2013/2025-08-12 15:33 - Candida albicans WO-1 (Dec 2013)
[DIR]A_gambiae_Oct_2006/2025-08-12 15:33 - Anopheles gambiae (Oct 2006) mosquito (AgamP3/anoGam3)
[DIR]P_troglodytes_Oct_2010/2025-08-12 15:33 - Pan troglodytes (Oct 2010) chimpanzee (CGSC 2.1.3/panTro3)
[DIR]P_trichocarpa_Jan_2010/2025-08-12 15:33 - Black cottonwood (poplar)
[DIR]A_melanoleuca_Dec_2009/2025-08-12 15:33 - Ailuropoda melanoleuca (Dec 2009) giant panda (ailMel1/BGI-Shenzhen AilMel 1.0)
[DIR]P_patens_Jan_2008/2025-08-12 15:33 - Physcomitrella patens (moss)
[DIR]M_musculus_Jun_2020/2025-08-12 15:33 - Mus musculus (Jun 2020) mouse (GRCm39/mm39)
[DIR]C_albicans_SC5314_Nov_2008/2025-08-12 15:33 - Candida albicans
[DIR]H_vulgaris_Apr_2024/2025-08-12 15:33 - Hydra vulgaris (Apr 2024) Swiftwater hydra (HydraT2T_AEP)
[DIR]V_cardui_Feb_2021/2025-08-12 15:33 - Vanessa cardui (Feb 2021) painted lady (ilVanCard2.1)
[TXT]synonyms.txt2025-08-12 15:33 17KIGB synonym file
[DIR]M_musculus_Jul_2007/2025-08-12 15:33 - Mus musculus (Jul 2007) mouse (NCBI37/mm9)