Welcome to IGB Quickload Main
Data available here are configured for visualization in the Integrated Genome Browser. These data include gene annotation files and genome information for many plant, animal, and microbial species.
When IGB launches, it contacts a deployed copy of Quickload Main and retrieves a file "contents.txt" that lists all genome assemblies available for display in IGB.
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 https://svn.bioviz.org/viewvc/genomes/quickload/.
About Quickload
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.
About this site
This site is a checked-out copy of Quickload Main subversion repository, deployed in the "htdocs" directory of the apache2 Web server.
To make the Quickload data contents easy to browse, the repository also includes styling configurations using javascript and CSS.
How to get a copy
Install svn and check out the repository with a read-only user:
svn co --username=guest https://svn.bioviz.org/repos/genomes/quickload
When prompted, enter username "guest" and password "guest".
Test a checked-out copy in Integrated Genome Browser
Open Integrated Genome Browser and select Preferences from the File menu. Select the Data Sources 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.
Add too big 2bit files
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.
![[ICO]](/styling/icons/blank.svg){kind=icon} | Name | Last modified | Size | Description |
|---|---|---|---|---|
![[PARENTDIR]](/styling/icons/glyphicon-circle-arrow-up.svg){kind=icon} | Parent Directory | - | ||
![[DIR]](/styling/icons/glyphicon-folder-open.svg){kind=icon} | C_teleta_Jan_2013/ | 2025-03-18 12:48 | - | Capitella teleta Jan 2013 (Capca1) |
| H_vulgaris_Apr_2024/ | 2025-03-18 12:48 | - | Hydra vulgaris (Apr 2024) Swiftwater hydra (HydraT2T_AEP) |
| D_dama_Nov_2023/ | 2025-03-18 12:48 | - | Dama dama (Nov 2023) Fallow deer (ASM3311817v1) |
| A_albopictus_Jan_2024/ | 2025-03-18 12:48 | - | Aedes albopictus (Jan 2024) Asian tiger mosquito (AalbF5) |
| V_cardui_Feb_2021/ | 2025-03-18 12:48 | - | Vanessa cardui (Feb 2021) painted lady (ilVanCard2.1) |
| O_latipes_Jul_2017/ | 2025-03-18 12:48 | - | Oryzias latipes (Jul 2017) Japanese rice fish (Medaka) (ASM223467v1) |
| M_musculus_Dec_2011/ | 2025-03-11 10:01 | - | Mus musculus (Dec 2011) mouse (GRCm38/mm10) |
![[TXT]](/styling/icons/glyphicon-file.svg){kind=icon} | species.txt | 2025-03-11 10:01 | 737 | Taxonomic and common names for species, shown in IGB species menu |
| E_caballus_Sep_2007/ | 2025-03-11 10:01 | - | Equus caballus (Sep 2007) horse (equCab2) |
| R_norvegicus_Mar_2012/ | 2025-03-11 10:01 | - | Rattus norvegicus (Mar 2012) rat (RGSC 5.0/rn5) |
| D_rerio_May_2017/ | 2025-03-11 10:01 | - | Danio rerio (May 2017) zebrafish (GRCz11/danRer11) |
| O_aries_Feb_2010/ | 2025-03-11 10:01 | - | Ovis aries (Feb 2010) sheep (ISGC Ovis_aries_1/oviAri1) |
| C_sabaeus_Mar_2014/ | 2025-03-11 10:01 | - | Chlorocebus sabaeus (Mar 2014) African green monkey (Chlorocebus_sabaeus 1.1/chlSab2) |
| H_sapiens_May_2004/ | 2025-03-11 10:01 | - | Homo sapiens hg17 (Genome Reference Consortium GRCh35) |
| M_musculus_Jul_2007/ | 2025-03-11 10:01 | - | Mus musculus (Jul 2007) mouse (NCBI37/mm9) |
| M_musculus_Jun_2020/ | 2025-03-11 10:01 | - | Mus musculus (Jun 2020) mouse (GRCm39/mm39) |
| H_sapiens_T2T_Jan_2022/ | 2025-03-11 10:01 | - | Homo sapiens T2T hs1 (T2T Consortium T2T-CHM13 v2.0) |
| H_sapiens_Feb_2009/ | 2025-03-11 10:01 | - | Homo sapiens hg19 (Genome Reference Consortium GRCh37) |
| M_musculus_Aug_2005/ | 2025-03-11 10:01 | - | Mus musculus (Aug 2005) mouse (NCBI35/mm7) |
| A_mellifera_Jan_2005/ | 2025-03-11 10:01 | - | Apis mellifera (honeybee) Jan 2005 (apiMel2/Baylor College of Medicine HGSC v.Amel_2.0 ) |
| X_tropicalis_Nov_2009/ | 2025-03-11 10:01 | - | Xenopus tropicalis JGI 4.2/xenTro3 |
| B_taurus_Oct_2011/ | 2025-03-11 10:01 | - | Bos taurus (cow) bosTau7 Oct 2011 assembly |
| contents.txt | 2025-03-11 10:01 | 6.8K | Available genome assemblies and their titles |
| B_taurus_Jun_2014/ | 2025-03-11 10:01 | - | Bos taurus (Jun 2014) cow (UMD_3.1.1/bosTau8) |
| D_rerio_Jul_2010/ | 2025-03-11 10:01 | - | Danio rerio (Jul 2010) zebrafish (danRer7/Zv9) |
| C_porcellus_Feb_2008/ | 2025-03-11 10:01 | - | Cavia porcellus (Feb 2008) guinea pig (cavPor3) |
| F_catus_Sep_2011/ | 2025-03-11 10:01 | - | Felis catus (Sep 2011) cat (ICGSC Felis_catus 6.2/felCat5) |
| R_norvegicus_Jul_2014/ | 2025-03-11 10:01 | - | Rattus norvegicus (Jul 2014) rat (RGSC 6.0/rn6) |
| X_tropicalis_Jul_2016/ | 2025-03-11 10:01 | - | Xenopus tropicalis JGI 9.1/xenTro9 |
| G_gallus_Nov_2011/ | 2025-03-11 10:01 | - | Gallus gallus (Nov 2011) chicken (galGal4/ICGC Gallus-gallus-4.0) |
| synonyms.txt | 2025-03-11 10:01 | 725 | IGB synonym file |
| A_melanoleuca_Dec_2009/ | 2025-03-11 10:01 | - | Ailuropoda melanoleuca (Dec 2009) giant panda (ailMel1/BGI-Shenzhen AilMel 1.0) |
| P_troglodytes_Oct_2010/ | 2025-03-11 10:01 | - | Pan troglodytes (Oct 2010) chimpanzee (CGSC 2.1.3/panTro3) |
| L_africana_Jul_2009/ | 2025-03-11 10:01 | - | Loxodonta africana (Jul 2009) elephant (loxAfr3) |
| R_norvegicus_Nov_2020/ | 2025-03-11 10:01 | - | Rattus norvegicus (Nov 2020) rat (mRatBN7.2/rn7) |
| H_sapiens_Mar_2006/ | 2025-03-11 10:01 | - | Homo sapiens hg18 (Genome Reference Consortium GRCh36) |
| M_musculus_Feb_2006/ | 2025-03-11 10:01 | - | Mus musculus (Feb 2006) mouse (NCBI36/mm8) |
| H_sapiens_Dec_2013/ | 2025-01-08 12:12 | - | Homo sapiens hg38 (Genome Reference Consortium GRCh38) |
| R_varieornatus_YOKOZUNA-1_Nov_2016/ | 2024-07-13 17:58 | - | Ramazzottius varieornatus strain YOKOZUNA-1 (Nov 2016) water bear (Rvar_4.0 assembly) |
| S_lycopersicum_Sep_2019/ | 2024-06-04 09:51 | - | Solanum lycopersicum (Sep 2019) tomato (SL4.0) |
| S_lycopersicum_Jun_2022/ | 2024-06-04 09:51 | - | Solanum lycopersicum (Jun 2022) tomato (SL5.0) |
| D_melanogaster_Aug_2014/ | 2024-06-04 09:51 | - | Drosophila melanogaster (Aug 2014) fruit fly (BDGP Release 6 + ISO1 MT/dm6) |
| H_exemplaris_Z151_Apr_2017/ | 2024-05-01 15:23 | - | Hypsibius exemplaris strain Z151 (Apr 2017) water bear (nHd_3.1 assembly) |
| S_pombe_May_2012/ | 2024-04-09 15:35 | - | S. pombe (May 2012) fission yeast |
| T_aestivum_Aug_2018/ | 2023-07-28 09:57 | - | Triticum aestivum (IWGSC v1) |
| L_passim_Apr_2014/ | 2023-06-16 14:35 | - | Lotmaria passim, strain SF, Crithidia mellificae strain SF, whole genome shotgun sequencing project |
| D_pulex_Sep_2016/ | 2023-06-16 14:32 | - | Daphnia pulex PA42 v3.0 (Sep 2016) water flea |
| S_bicolor_Jan_2009/ | 2023-06-16 14:29 | - | Sorghum bicolor |
| C_papaya_Aug_2010/ | 2023-06-16 14:28 | - | Papaya |
| P_persica_Apr_2010/ | 2023-06-16 14:28 | - | Peach v1 genome assembly |
| T_parvula_May_2012/ | 2023-06-16 14:28 | - | Thellungiella parvula (salt cress) v2, May 2012 |
| B_distachyon_Aug_2010/ | 2023-06-16 14:27 | - | Brachypodium distachyon (a model grass) JGI v1.0 8x assembly |
| F_albicollis_Jun_2013/ | 2023-06-16 14:27 | - | Ficedula albicollis (Jun 2013) collared flycatcher (FicAlb1.5) |
| A_lyrata_Apr_2011/ | 2023-06-16 14:26 | - | Arabidopsis lyrata JGI v1.0 assembly |
| C_sativa_CBDRx_Dec_2018/ | 2023-06-16 14:26 | - | Cannabis sativa CBDRx Dec 2018 |
| Y_lipolytica_CLIB122_Jul_2004/ | 2023-06-16 14:21 | - | Yarrowia lipolytica CLIB122 (Jul 2004) Assembly GCA_000002525.2 |
![[IMG]](/styling/icons/glyphicon-picture.svg){kind=icon} | favicon.ico | 2023-06-16 14:21 | 7.1K | Icon IGB displays for this data source in the Data Access tab |
| A_thaliana_Apr_2008/ | 2023-06-16 14:17 | - | Arabidopsis thaliana TAIR8 genome assembly |
| V_vinifera_Mar_2010/ | 2023-06-16 14:14 | - | Wine grape 12x assembly |
| G_max_Aug_2010/ | 2023-06-16 14:13 | - | Soybean Glyma1 |
| C_reinhardtii_Nov_2010/ | 2023-06-16 14:13 | - | Chlamy (an algal genome) |
| O_sativa_japonica_Oct_2011/ | 2023-06-16 14:10 | - | Rice, japonic variety Os-Nipponbare-Reference-IRGSP-1.0 assembly |
| P_trichocarpa_Aug_2012/ | 2023-06-16 14:09 | - | Black cottonwood (poplar) |
| P_patens_Jan_2018/ | 2023-06-16 14:09 | - | Physcomitrella patens (moss) v3.3 |
| A_gambiae_Feb_2003/ | 2023-06-16 14:06 | - | Anopheles gambiae (Feb 2003) mosquito (anoGam1/IAGP v.MOZ2) |
| Y_lipolytica_PO1f_May_2014/ | 2023-06-16 14:06 | - | Yarrowia lipolytica PO1f (May 2014) Assembly GCA_000590845.2 |
| C_albicans_WO-1_Dec_2013/ | 2023-06-16 14:06 | - | Candida albicans WO-1 (Dec 2013) |
| C_elegans_Feb_2013/ | 2023-06-16 14:06 | - | C. elegans Feb 2013 (WBcel235/ce11) |
| C_elegans_May_2008/ | 2023-06-16 14:05 | - | C. elegans May 2008 WS190/ce6 |
| C_albicans_WO-1_Jul_2010/ | 2023-06-16 14:01 | - | Candida albicans |
| D_magna_Jan_2019/ | 2023-06-16 14:01 | - | Daphnia magna SK v1.0 (Jan 2019) water flea |
| T_rubripes_Oct_2011/ | 2023-06-16 13:53 | - | Takifugu rubripes (Oct 2011) Fugu (FUGU5/fr3) |
| E_coli_K12-MG1655_Jan_2012/ | 2023-06-16 13:53 | - | Escherichia coli K12-MG1655 |
| D_pulex_Feb_2011/ | 2023-06-16 13:52 | - | Daphnia pulex TCO v1.0 (Feb 2011) water flea |
| Z_mays_B73_Mar_2010/ | 2023-06-16 13:51 | - | Zea mays B73 RefGen_v2 assembly |
| P_patens_Jan_2008/ | 2023-06-16 13:49 | - | Physcomitrella patens (moss) |
| M_acuminata_DH_Pahang_Jan_2016/ | 2023-06-16 13:49 | - | Musa acuminata DH Pahang (Jan 2016) banana (v2) |
| D_melanogaster_Jul_2014/ | 2023-06-16 13:49 | - | Drosophila melanogaster (July 2014) fruit fly (dmel_r6.03_FB2014_06) |
| N_vectensis_Jun_2007/ | 2023-06-16 13:48 | - | Nematostella vectensis, starlet sea anemone |
| C_albicans_SC5314_Jun_2014/ | 2023-06-16 13:45 | - | Candida albicans |
| O_sativa_japonica_Jun_2009/ | 2023-06-16 13:44 | - | Rice, japonic variety |
| M_domestica_Borkh_Jun_2017/ | 2023-06-16 13:42 | - | Malus domestica (Jun 2017) apple |
| D_melanogaster_Apr_2006/ | 2023-06-16 13:41 | - | Drosophila melanogaster (Apr 2006) fruit fly (dm3/BDGP R5) |
| S_bicolor_Jun_2013/ | 2023-06-16 13:37 | - | Sorghum bicolor |
| T_kodakaraensis_KOD1_May_2004/ | 2023-06-16 13:36 | - | Thermococcus kodakaraensis |
| R_communis_May_2008/ | 2023-06-16 13:36 | - | Castor bean |
| D_magna_Apr_2010/ | 2023-06-16 13:36 | - | Daphnia magna Xinb3 v2.4 (Apr 2010) water flea |
| G_max_Jan_2014/ | 2023-06-16 13:36 | - | Soybean Glyma2 |
| C_sativa_DH55_Apr_2014/ | 2023-06-16 13:35 | - | Camelina, false flax, an oilseed crop |
| S_cerevisiae_Jun_2008/ | 2023-06-16 13:34 | - | S. cerevisiae strain S288C (Jun 2008) budding yeast (sacCer2) |
| F_vesca_Sep_2011/ | 2023-06-16 13:34 | - | Fragaria vesca (woodland strawberry) v1.1 |
| A_rostrata_Oct_2016/ | 2023-06-16 13:31 | - | Anguilla rostrata |
| C_albicans_SC5314_Nov_2008/ | 2023-06-16 13:30 | - | Candida albicans |
| T_castaneum_Mar_2008/ | 2023-06-16 13:30 | - | Tribolium castaneum (March 2008) red flour beetle |
| S_lycopersicum_May_2012/ | 2023-06-16 13:25 | - | Solanum lycopersicum (May 2012) tomato (SL2.40) |
| P_trichocarpa_Jan_2010/ | 2023-06-16 13:23 | - | Black cottonwood (poplar) |
| M_truncatula_Mar_2009/ | 2023-06-16 13:23 | - | Medicago truncatula |
| A_thaliana_Jun_2009/ | 2023-06-16 13:23 | - | Arabidopsis thaliana TAIR9, TAIR10 genome assembly |
| S_cerevisiae_Apr_2011/ | 2023-06-16 13:21 | - | S. cerevisiae strain S288C (Apr 2011) budding yeast (sacCer3) |
| Y_lipolytica_WSH-Z06_Mar_2014/ | 2023-06-16 13:19 | - | Yarrowia lipolytica WSH-Z06 (Mar 2014) Assembly GCA_000613155.1 |
| S_tuberosum_DM_Jul_2011/ | 2023-06-16 13:19 | - | Solanum tuberosum Group Phureja clone DM1-3 (potato) v4.03 |
| A_gambiae_Oct_2006/ | 2023-06-16 13:18 | - | Anopheles gambiae (Oct 2006) mosquito (AgamP3/anoGam3) |
| V_carteri_Jul_2010/ | 2023-06-16 13:18 | - | Volvox |
| C_elegans_Oct_2010/ | 2023-06-16 13:18 | - | C. elegans Oct 2010 (WS220/ce10) |
| S_lycopersicum_Feb_2017/ | 2023-06-16 13:16 | - | Solanum lycopersicum (Feb 2017) tomato (SL3.0) |
| D_discoideum_Ax4_May_2009/ | 2023-06-16 13:15 | - | Slime mold |
| S_lycopersicum_Feb_2014/ | 2023-06-16 13:14 | - | Solanum lycopersicum (Feb 2014) tomato (SL2.50) |