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35d936d
feat: updated version of pretext workflow developed by Delphine that …
Smeds Oct 28, 2024
5ce525d
Fix connections between optional parameters and mandatory inputs,...
Delphine-L Nov 5, 2024
4e20b69
add license, authors, and diverse labels and tags
Delphine-L Nov 12, 2024
b666689
change telomere track height to correspond to the size of the telomeres
Delphine-L Nov 12, 2024
42a7240
Add README and CHANGELOG
Delphine-L Nov 12, 2024
e6c4591
update pretextgraph to fix track display issue, and add parameters to…
Delphine-L Nov 14, 2024
6cc5b23
add new parameter to the README
Delphine-L Nov 14, 2024
851f762
Remove explicit data conversion, it got fixed in galaxy
Delphine-L Nov 20, 2024
0cf305a
Rename folder
Delphine-L Nov 20, 2024
2a0c7bb
add release number and remove parameter from the READMA
Delphine-L Nov 20, 2024
4de0fbc
expose output to be used for Jbrowse2 workflow
Delphine-L Nov 20, 2024
3cf74ab
add tests
Delphine-L Nov 26, 2024
95bd01c
replace dockstore file after cleaning my local repository
Delphine-L Nov 26, 2024
2779664
add Marius comments
Delphine-L Nov 26, 2024
d4ba83e
rename folder
Delphine-L Nov 26, 2024
ce121eb
Make more clear that HiC reads need to be in collections
Delphine-L Nov 26, 2024
a8fc19f
use smaller test data
Delphine-L Nov 26, 2024
c4611ad
Remove unnecessary specification that the input is a collection
Delphine-L Nov 27, 2024
1ff2cd8
add marius comments and more details about the inputs
Delphine-L Nov 27, 2024
306265e
correct typo
Delphine-L Nov 27, 2024
4707632
use even smaller data
Delphine-L Nov 27, 2024
14c03d2
rename output of Gfastats
Delphine-L Nov 27, 2024
425d64c
update tools
Delphine-L Dec 13, 2024
db8b8ad
renaming folder with more descriptive name
Delphine-L Dec 16, 2024
67f1492
change folder name to lower case
Delphine-L Dec 16, 2024
0911819
Improve name of the Workflow
Delphine-L Dec 16, 2024
3264afa
update dockstore file
Delphine-L Dec 16, 2024
e01dabe
make hap2 optionnal, correct input names in test
Delphine-L Feb 4, 2025
04217d4
replace filter and merge by bwamem2 sp option and use smaller data fo…
Delphine-L Feb 12, 2025
c7b78b5
skip telomere track if no telomeres are found and smaller test data
Delphine-L Feb 14, 2025
62aaceb
correct missing input in tests
Delphine-L Feb 14, 2025
9587f82
add second test
Delphine-L Feb 14, 2025
fff0f60
remove unnecessary name sorting
Delphine-L Mar 19, 2025
c86520d
Update README.md
Delphine-L Mar 27, 2025
2d6620b
add Beta to the workflow name
Delphine-L Mar 27, 2025
7d241b4
Update workflows/VGP-assembly-v2/hi-c-contact-map-for-assembly-manual…
Delphine-L Mar 27, 2025
9ecfd15
Update workflows/VGP-assembly-v2/hi-c-contact-map-for-assembly-manual…
Delphine-L Mar 27, 2025
65de146
Update CHANGELOG.md with beta version number
Delphine-L Mar 27, 2025
b7c176f
replace the tool for merging alignments with samtool merge
Delphine-L Mar 27, 2025
7c5c96b
update bwa-mem2
Delphine-L Mar 28, 2025
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Original file line number Diff line number Diff line change
Expand Up @@ -164,7 +164,7 @@
"format-version": "0.1",
"license": "MIT",
"release": "1.0",
"name": "PretextMap Generation from 1 or 2 haplotypes",
"name": "PretextMap Generation from 1 or 2 haplotypes - Beta",
"report": {
"markdown": "\n# Workflow Execution Report\n\n## Workflow Inputs\n```galaxy\ninvocation_inputs()\n```\n\n## Workflow Outputs\n```galaxy\ninvocation_outputs()\n```\n\n## Workflow\n```galaxy\nworkflow_display()\n```\n"
},
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