| 4e9f869 | Jason Stajich | 26 April 2016, 20:16:13 UTC | simplify | 26 April 2016, 20:16:13 UTC |
| 78e1094 | Jason Stajich | 26 April 2016, 20:14:34 UTC | store compressed | 26 April 2016, 20:14:34 UTC |
| 1f4e4d8 | Shyam Rallapalli | 10 August 2015, 14:33:15 UTC | updated oadb ftp links-2 | 10 August 2015, 14:33:15 UTC |
| 8eddc74 | Shyam Rallapalli | 10 August 2015, 14:32:42 UTC | updated oadb ftp links | 10 August 2015, 14:32:42 UTC |
| f688b70 | Shyam Rallapalli | 26 March 2015, 17:00:36 UTC | updated ENA submission information for RNA-seq reads of mixed material sampels - AT1, AT2, FW1, LM1, UB1 and WW1 | 26 March 2015, 17:00:36 UTC |
| ba458fa | Martin Page | 23 March 2015, 10:47:06 UTC | Update org.info | 23 March 2015, 10:47:06 UTC |
| 53ab577 | Shyam Rallapalli | 17 February 2015, 17:27:45 UTC | Merge pull request #7 from bjclavijo/master Hymenoscyphus fraxineus assembly v2 added. | 17 February 2015, 17:27:45 UTC |
| 9a4ffb8 | Bernardo J. Clavijo (TGAC) | 17 February 2015, 16:31:24 UTC | Hymenoscyphus fraxineus assembly v2 added. | 17 February 2015, 16:31:24 UTC |
| 0bb4254 | Bernardo Clavijo | 17 February 2015, 15:17:38 UTC | Create assembly.info | 17 February 2015, 15:17:38 UTC |
| 0456b3a | Dan MacLean | 19 January 2015, 17:05:25 UTC | Merge pull request #6 from wookoouk/master Update README.md | 19 January 2015, 17:05:25 UTC |
| a2bcf41 | Shyam Rallapalli | 15 January 2015, 18:03:27 UTC | update strain collector information and geographical locations | 15 January 2015, 18:03:27 UTC |
| dd88c98 | Martin Page | 09 January 2015, 10:39:07 UTC | Update README.md added example to download without history | 09 January 2015, 10:39:07 UTC |
| 9ec42d4 | Shyam Rallapalli | 12 December 2014, 17:47:01 UTC | removed duplicated gff file and replaced gene gff file with added GO and PFAM domain information | 12 December 2014, 17:47:01 UTC |
| 793a8bf | Shyam Rallapalli | 15 September 2014, 15:51:16 UTC | Update WW1 read sets | 15 September 2014, 15:51:16 UTC |
| b61376f | Shyam Rallapalli | 22 August 2014, 10:32:45 UTC | updated ftp links | 22 August 2014, 10:32:45 UTC |
| e24c164 | Shyam Rallapalli | 21 August 2014, 22:36:09 UTC | Update reads.txt | 21 August 2014, 22:36:09 UTC |
| 619cd41 | Shyam Rallapalli | 21 August 2014, 22:35:50 UTC | Update reads.txt | 21 August 2014, 22:35:50 UTC |
| 7e35284 | Shyam Rallapalli | 02 July 2014, 16:31:14 UTC | variant call data for FW1, LM1 and WW1 of Chalara strains is included, bam files and vcf files for FoxleyWood1 (FW1), LollyMoor1 (LM1) and WaylandWood1 (WW1) | 02 July 2014, 16:31:14 UTC |
| 85112ac | Shyam Rallapalli | 23 June 2014, 11:40:44 UTC | Update reads.txt Provided ENA accession number for details of submission | 23 June 2014, 11:40:44 UTC |
| 02a11c2 | Shyam Rallapalli | 23 June 2014, 11:14:51 UTC | Raw data for strains and strain names updated Strain names updated to reflect the names submitted to The European Nucleotide Archive (ENA). | 23 June 2014, 11:14:51 UTC |
| 07088b1 | Shyam Rallapalli | 12 June 2014, 15:51:25 UTC | 23 European isolates sequenced at Mark Blaxter.... ….lab, The University of Edinburgh H. pseudoalbidus from Europe STRAIN YEAR COUNTRY H_2008_81_6 2008 NORWAY H_2008_125_2 2008 NORWAY H_2008_139_1 2008 NORWAY H_2008_142_5 2008 NORWAY H_2008_148_4 2008 NORWAY H_2008_152_4 2008 NORWAY H_2009_86_3 2009 NORWAY H_2010_189_4 2010 NORWAY H_2010_189_5 2010 NORWAY H_2011_11_1 2011 NORWAY H_2012_24_1 2012 NORWAY H_2012_38_2_2 2012 NORWAY H_2012_42_1_1 2012 NORWAY H_CBS122191 ? AUSTRIA H_CBS122503 2011 POLAND H_CBS122504 2005 POLAND H_CBS122505 2000 POLAND H_CBS122507 2000 POLAND H_FON_M_1 2009 FRANCE H_GIR_M_2 2009 FRANCE H_LAN_M_1 2009 FRANCE H_MIG_M_1 2009 FRANCE H_LSVM82 2008 FRANCE | 12 June 2014, 15:51:25 UTC |
| f3b741e | Shyam Rallapalli | 12 June 2014, 15:41:44 UTC | fixed ftp link | 12 June 2014, 15:41:44 UTC |
| afd7d52 | Richard Harrison | 11 June 2014, 11:10:34 UTC | Merge branch 'master' of github.com:ash-dieback-crowdsource/data | 11 June 2014, 11:10:34 UTC |
| 8170711 | Richard Harrison | 11 June 2014, 11:10:06 UTC | Summary data for ash dieback | 11 June 2014, 11:10:06 UTC |
| 2205c10 | mcmullan0 | 20 May 2014, 13:23:44 UTC | MM Updated collector name in FERA_cc* strain.info files | 20 May 2014, 13:23:44 UTC |
| 07b363e | mcmullan0 | 19 May 2014, 19:40:46 UTC | MM resolve git divergence | 19 May 2014, 19:40:46 UTC |
| 7500346 | mcmullan0 | 19 May 2014, 17:51:02 UTC | MM added reads + metadata for 20 UK chalara isolates sequenced at TGAC | 19 May 2014, 17:51:02 UTC |
| ff3c071 | Shyam Rallapalli | 19 May 2014, 14:51:53 UTC | Revert "MM added reads + metadata for 20 UK chalara isolates sequenced at TGAC" This reverts commit b1ff9a0fa1579e1d3f71d2ae91a8c40e6af8dd5a. | 19 May 2014, 14:51:53 UTC |
| b1ff9a0 | mcmullan0 | 19 May 2014, 13:52:57 UTC | MM added reads + metadata for 20 UK chalara isolates sequenced at TGAC | 19 May 2014, 13:52:57 UTC |
| eed5aca | Richard Harrison | 18 May 2014, 10:40:36 UTC | EMR diversity set data- March 2013 | 18 May 2014, 10:40:36 UTC |
| b877168 | Dan MacLean | 24 April 2014, 12:03:55 UTC | Create annotation.info | 24 April 2014, 12:03:55 UTC |
| 27ccb2a | Dan MacLean | 24 April 2014, 11:47:48 UTC | Create extended_genes.gff Ive extended the gene models in the TGAC gene predictions. I did the following Align the RNAseq reads from KW1 against the KW1 assembly, using BWA For each `gene` model in the TGAC gene predictions, that was within 100nt of another gene I extracted reads on the same strand that fell within -1000nt of the start or 1000nt of the end With these reads, starting with the start and end of the gene I followed read overlaps as far as possible, until reads no longer overlapped. The most distal read then counted as the new gene start/end. The below GFF shows all extended gene features. | 24 April 2014, 11:47:48 UTC |
| ae07c8e | Dan MacLean | 23 April 2014, 18:40:25 UTC | Create secretome_go_terms_enrichement.txt | 23 April 2014, 18:40:25 UTC |
| d09d425 | Manny | 12 March 2014, 14:09:26 UTC | Merge branch 'master' of https://github.com/ash-dieback-crowdsource/data | 12 March 2014, 14:09:26 UTC |
| 8cd9d8c | Manny | 12 March 2014, 14:08:25 UTC | CDSs from RNA-seq data from TGAC | 12 March 2014, 14:08:25 UTC |
| ff1417f | Martin Trick | 11 March 2014, 11:31:16 UTC | Most significant gene expression markers correlated with disease symptoms over 186 Danish trees | 11 March 2014, 11:31:16 UTC |
| a63e174 | Manny | 10 March 2014, 12:16:23 UTC | Tree35 RNA-seq based gene models | 10 March 2014, 12:16:23 UTC |
| 2e72d69 | Shyam Rallapalli | 07 February 2014, 16:02:29 UTC | Updated reads.txt ftp location and md5sums of files were added | 07 February 2014, 16:02:29 UTC |
| b3384eb | Diane Saunders | 07 February 2014, 12:54:02 UTC | Japanese isolate genome sequence | 07 February 2014, 12:54:02 UTC |
| cd99033 | Shyam Rallapalli | 29 November 2013, 19:27:34 UTC | Updated analysis markdown | 29 November 2013, 19:27:34 UTC |
| e8c015f | Shyam Rallapalli | 29 November 2013, 19:16:26 UTC | update of PFAM domain and Gene Ontology for Chalara protein predictions | 29 November 2013, 19:16:26 UTC |
| 44f6cd4 | Martin Trick | 25 November 2013, 10:08:54 UTC | Repeated sample of Tree35 RNA-Seq reads, together with assemblies, annotation and BLAST results. Constitutes a replacement, canonical reference sequence for use in association studies | 25 November 2013, 10:08:54 UTC |
| 7bea21d | Shyam Rallapalli | 20 November 2013, 16:31:59 UTC | blastn to gff info added gff file was generated from matrintrick analysis of blastall blastn of RNA-seq assembly | 20 November 2013, 16:31:59 UTC |
| b212659 | Shyam Rallapalli | 20 November 2013, 13:11:11 UTC | RNA-seq blastn to GFF annotations tree35 and ATU1 RNA-seq trinity assemblies are used for blast+ blastn and alignment locaitons are presented as gff | 20 November 2013, 13:11:11 UTC |
| bb7b68b | Shyam Rallapalli | 08 November 2013, 17:23:25 UTC | Go ids appended to GFF Inteproscan5 analysis used to append Go id information to GFF and SVG file prodcuded by the analysis are stored | 08 November 2013, 17:23:25 UTC |
| 6e55413 | Shyam Rallapalli | 08 November 2013, 17:12:16 UTC | Interproscan 5 of predicted proteins Interproscan 5 analysis created SVG files for predicted proteins Chalara. SVG files for the 5961 proteins are stored in SVG-out folder | 08 November 2013, 17:12:16 UTC |
| b6ce412 | Dan MacLean | 24 September 2013, 14:13:12 UTC | Variants for Foxley Wood, Lolly Moor and Japanese samples Added GATK called SNPs and INDELS from Foxley Wood, Lolly Moor and Japanese samples collected from mixed material | 24 September 2013, 14:13:12 UTC |
| 7097c08 | Diane Saunders | 24 September 2013, 13:16:26 UTC | Reads added for RNAseq data generated from a Japanese sample (sample 2) | 24 September 2013, 13:16:26 UTC |
| 84d1145 | Diane Saunders | 24 September 2013, 13:14:17 UTC | Reads added for RNAseq data generated from a Japanese sample (sample 1) | 24 September 2013, 13:14:17 UTC |
| bab852a | Diane Saunders | 24 September 2013, 13:08:38 UTC | Reads added for RNAseq data generated from a sample from Foxley Wood | 24 September 2013, 13:08:38 UTC |
| 87520f7 | Diane Saunders | 24 September 2013, 13:05:23 UTC | Reads added for RNAseq data generated from a sample from Lolly Moor. | 24 September 2013, 13:05:23 UTC |
| 538cd0c | ethering | 13 September 2013, 13:06:15 UTC | Moved GIRM2 and LSVM82 to h_pseudoalbidus | 13 September 2013, 13:06:15 UTC |
| e53800c | Diane Saunders | 10 September 2013, 09:35:38 UTC | Effector mining spreadsheet added | 10 September 2013, 09:35:38 UTC |
| 91fd92d | rachelglover | 28 August 2013, 14:12:33 UTC | Blastn of FERA_94 assembly vs. KW1 mycelia assembly | 28 August 2013, 14:12:33 UTC |
| 7ab68f1 | rachelglover | 28 August 2013, 14:10:06 UTC | Blastn of FERA_93 assembly vs. KW1 mycelia assembly | 28 August 2013, 14:10:06 UTC |
| f847627 | rachelglover | 28 August 2013, 14:07:44 UTC | Blastn of FERA_233 assembly vs. KW1 mycelia assembly | 28 August 2013, 14:07:44 UTC |
| 99b2e01 | rachelglover | 28 August 2013, 14:04:51 UTC | Blastn of FERA_232 assembly vs. KW1 mycelia assembly | 28 August 2013, 14:04:51 UTC |
| 0bf07bb | rachelglover | 28 August 2013, 13:57:37 UTC | Blastn of FERA_105 assembly vs. KW1 mycelia assembly | 28 August 2013, 13:57:37 UTC |
| b7a11c8 | rachelglover | 28 August 2013, 13:50:31 UTC | Blastn of FERA_88 assembly against Kenninghall wood mycelia assembly | 28 August 2013, 13:50:31 UTC |
| dfc05d6 | Rachel Glover | 28 August 2013, 13:38:38 UTC | Revert "Revert "Revert "Identified mitovirus sequences from their respective assemblies""" This reverts commit f004c7bdbc3ce3905cbbce692a895cd39f9132c0. | 28 August 2013, 13:38:38 UTC |
| f004c7b | Rachel Glover | 28 August 2013, 13:38:35 UTC | Revert "Revert "Identified mitovirus sequences from their respective assemblies"" This reverts commit a8cd5d32922dac42a110b5aa3f4daacd5569b0c9. | 28 August 2013, 13:38:35 UTC |
| a8cd5d3 | Rachel Glover | 28 August 2013, 13:38:23 UTC | Revert "Identified mitovirus sequences from their respective assemblies" This reverts commit 8381cd1dfdc1308a0a1a8a836fb0c01f8e393f85. | 28 August 2013, 13:38:23 UTC |
| 8381cd1 | Rachel Glover | 28 August 2013, 13:19:29 UTC | Identified mitovirus sequences from their respective assemblies | 28 August 2013, 13:19:29 UTC |
| bc6526a | Rachel Glover | 28 August 2013, 13:18:54 UTC | Blastx of AT1 assembly against genbank | 28 August 2013, 13:18:54 UTC |
| 78ed926 | Rachel Glover | 28 August 2013, 13:18:42 UTC | Blastx of AT2 assembly against genbank | 28 August 2013, 13:18:42 UTC |
| 9a4c6c1 | Rachel Glover | 28 August 2013, 13:18:23 UTC | Blastx of AT1 assembly against Genbank | 28 August 2013, 13:18:23 UTC |
| 51ffc2c | Rachel Glover | 28 August 2013, 13:18:09 UTC | Blastx of Upton assembly against genbank | 28 August 2013, 13:18:09 UTC |
| b8431ac | Rachel Glover | 28 August 2013, 13:17:53 UTC | Blastx of Holt country park assembly against Genbank | 28 August 2013, 13:17:53 UTC |
| 27d7d27 | Rachel Glover | 28 August 2013, 13:17:36 UTC | Blastx of Ashwellthorpe ATU1 assembly against Genbank | 28 August 2013, 13:17:36 UTC |
| ad72009 | Rachel Glover | 28 August 2013, 13:17:15 UTC | Blastx of KW1 assembly against Genbank | 28 August 2013, 13:17:15 UTC |
| d56f0a8 | Rachel Glover | 28 August 2013, 13:16:37 UTC | RNAseq Chalara fraxinea seqs: FERA_94 includes reads, trinity assembly, blastx of the assembly against genbank | 28 August 2013, 13:16:37 UTC |
| 1ad8fa3 | Rachel Glover | 28 August 2013, 13:15:52 UTC | RNAseq Chalara fraxinea seqs: FERA_93 includes reads, trinity assembly, blastx of the assembly against genbank | 28 August 2013, 13:15:52 UTC |
| af71ed0 | Rachel Glover | 28 August 2013, 13:15:06 UTC | RNAseq Chalara fraxinea seqs: FERA_88 includes reads, trinity assembly, blastx of the assembly against genbank | 28 August 2013, 13:15:06 UTC |
| 2d9175f | Rachel Glover | 28 August 2013, 13:14:17 UTC | RNAseq Chalara fraxinea seqs: FERA_233 includes reads, trinity assembly, blastx of the assembly against Genbank | 28 August 2013, 13:14:17 UTC |
| 42d2936 | Rachel Glover | 28 August 2013, 13:13:15 UTC | RNAseq Chalara fraxinea seqs: FERA_232 includes reads, trinity assembly, blastx of the assembly against genbank | 28 August 2013, 13:13:15 UTC |
| f9a286f | Rachel Glover | 28 August 2013, 13:12:30 UTC | RNAseq Chalara fraxinea seqs: FERA_105 includes reads, trinity assembly, blastx of the assembly against genbank | 28 August 2013, 13:12:30 UTC |
| 4680f81 | Martin Trick | 14 August 2013, 09:57:57 UTC | Added Tree35 RNA-seq reads, assemblies, annotation and BLAST results | 14 August 2013, 09:57:57 UTC |
| dc8bfbf | Martin Trick | 14 August 2013, 09:46:57 UTC | Added Tree35 RNA-seq reads, assemblies, annotation and BLAST results | 14 August 2013, 09:46:57 UTC |
| 35e1700 | Martin Trick | 13 August 2013, 14:17:10 UTC | Added Tree35 RNA-seq reads, assemblies, annotation and BLAST results | 13 August 2013, 14:17:10 UTC |
| 6b65e52 | Martin Trick | 13 August 2013, 14:16:25 UTC | Added Tree35 RNA-seq reads, assemblies, annotation and BLAST results | 13 August 2013, 14:16:25 UTC |
| 919632f | Martin Trick | 13 August 2013, 14:15:07 UTC | Added Tree35 RNA-seq reads, assemblies, annotation and BLAST results | 13 August 2013, 14:15:07 UTC |
| a83fa47 | ethering | 09 August 2013, 10:36:42 UTC | Added GIRM2 and LSVM82 reads and analysis | 09 August 2013, 10:36:42 UTC |
| 4da0235 | Jason Stajich | 12 July 2013, 00:14:42 UTC | re-ran with multiple input seqs so the coords showup properly | 12 July 2013, 00:14:42 UTC |
| 07cb5b3 | Jason Stajich | 08 July 2013, 18:03:28 UTC | remove large file | 08 July 2013, 18:03:28 UTC |
| 13522c7 | Jason Stajich | 08 July 2013, 17:37:04 UTC | remove the all tar file | 08 July 2013, 17:37:04 UTC |
| 60f5b04 | Jason Stajich | 08 July 2013, 17:25:57 UTC | Merge branch 'master' of github.com:ash-dieback-crowdsource/data | 08 July 2013, 17:25:57 UTC |
| 362b902 | Jason Stajich | 08 July 2013, 17:25:24 UTC | annotation description for antiSMASH | 08 July 2013, 17:25:24 UTC |
| 360456a | Jason Stajich | 08 July 2013, 17:23:42 UTC | annotation table for making EMBL file -- removing the periods so antiSMASH doesn't choke | 08 July 2013, 17:23:42 UTC |
| 12dc92a | Jason Stajich | 08 July 2013, 17:23:06 UTC | annotation table for making EMBL file | 08 July 2013, 17:23:06 UTC |
| c2c3a69 | Jason Stajich | 08 July 2013, 17:20:00 UTC | results for 2.0.2 run and the full dataset | 08 July 2013, 17:20:00 UTC |
| 8d02f6b | Jason Stajich | 08 July 2013, 16:01:32 UTC | symlink for prepping EMBL | 08 July 2013, 16:01:32 UTC |
| 04052c6 | Jason Stajich | 08 July 2013, 16:01:21 UTC | EMBL format for running antsmash | 08 July 2013, 16:01:21 UTC |
| 51692ec | Jason Stajich | 08 July 2013, 16:00:58 UTC | symlink for the files | 08 July 2013, 16:00:58 UTC |
| 8dcc4b5 | Jason Stajich | 08 July 2013, 16:00:22 UTC | some scripts for prepping and running antismash | 08 July 2013, 16:00:22 UTC |
| 0ee5be0 | Diane Saunders | 04 July 2013, 17:23:19 UTC | mRNAseq data and assemblies of primordial and mature fruiting bodies | 04 July 2013, 17:23:19 UTC |
| d726f0d | Rachel Glover | 17 June 2013, 11:58:30 UTC | assembly of the Upton broad and marshes RNA-seq data | 17 June 2013, 11:58:30 UTC |
| a90c6df | Rachel Glover | 17 June 2013, 11:54:47 UTC | assembly of the Holt Country Park RNA-seq data | 17 June 2013, 11:54:47 UTC |
| e4abe79 | Jason Stajich | 31 May 2013, 01:27:08 UTC | added LTRharvest output | 31 May 2013, 01:27:08 UTC |
| f825433 | Dan MacLean | 14 May 2013, 11:26:49 UTC | Merge pull request #5 from bjclavijo/master Nornex Tree35 assembled by TGAC | 14 May 2013, 11:26:49 UTC |
| 2783514 | Bernardo J. Clavijo (TGAC) | 13 May 2013, 23:03:15 UTC | Added Nornex tree35 assembly by TGAC | 13 May 2013, 23:03:15 UTC |
