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118 Open 213 Closed
118 Open 213 Closed
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Issues list

TrimReads for popoolation error
#534 opened Jul 12, 2021 by r-mashoodh
How to extract the UMI info in illumina read's name into a seperate tag Priority: Medium Status: Pending In discussion to include in the project backlog Type: Question User/Developer question to be answer
#533 opened Nov 11, 2019 by TendoLiu
1
GemMappabilityToBed has problems with some invalid characters in mappability files Priority: Medium Status: Pending In discussion to include in the project backlog Type: Question User/Developer question to be answer
#531 opened Oct 19, 2018 by robmaz
1
DownloadDistmapResult fails with many parts Priority: Medium Status: Pending In discussion to include in the project backlog Type: Question User/Developer question to be answer
#530 opened Oct 18, 2018 by robmaz
1
Better support for read groups in distmap integration Priority: Medium Status: Pending In discussion to include in the project backlog Type: Epic Tasks that should be split in different issues
#518 opened Aug 24, 2018 by magicDGS
1
Create a way to identify issues for beginners/newcomers Priority: Medium Status: Accepted Accepted in the project backlog Type: Maintenance Maintenance work (refactoring, build...)
#515 opened Aug 24, 2018 by magicDGS
Support mixed dual/single indexed files in AssignReadGroupByBarcode Priority: Medium Status: Blocked Blocked (in the project backlog) Type: Enhancement New features or improved behavior
#512 opened Aug 23, 2018 by magicDGS
9
ReadsToDistmap: do not require maxReadLength Priority: Medium Status: Pending In discussion to include in the project backlog Type: Question User/Developer question to be answer
#508 opened Aug 20, 2018 by robmaz
2
Decide new theme or create one for help pages Priority: Medium Status: Accepted Accepted in the project backlog Type: Enhancement New features or improved behavior
#507 opened Aug 14, 2018 by magicDGS
Migrate docs to its own repository (or gh-pages branch) Priority: High Status: Accepted Accepted in the project backlog Type: Maintenance Maintenance work (refactoring, build...)
#506 opened Aug 6, 2018 by magicDGS
Move javadoc documentation to a service (or gh-pages branch) Priority: High Status: Blocked Blocked (in the project backlog) Type: Maintenance Maintenance work (refactoring, build...)
#505 opened Aug 6, 2018 by magicDGS
1
Start publishing ReadTools versions in maven central Priority: High Status: Blocked Blocked (in the project backlog) Type: Enhancement New features or improved behavior
#504 opened Aug 6, 2018 by magicDGS
3
Add support for indexing GemMappabilityToBed output Priority: Medium Status: Accepted Accepted in the project backlog Type: Enhancement New features or improved behavior
#498 opened Jul 27, 2018 by magicDGS
Add GemScoreMethod for "mappability sensu stricto" Priority: Medium Status: Accepted Accepted in the project backlog Type: Enhancement New features or improved behavior
#494 opened Jul 27, 2018 by magicDGS
Create factory for IO stream creation to be used reads but also other files Priority: Medium Status: Accepted Accepted in the project backlog Type: Enhancement New features or improved behavior
#493 opened Jul 27, 2018 by magicDGS
Support block-compressed FASTA reference ~gatk Priority: Medium Status: Blocked Blocked (in the project backlog) Type: Enhancement New features or improved behavior
#489 opened Jul 26, 2018 by magicDGS
Investigate performance of buffering for GemMappabilityReader Priority: Medium Status: Accepted Accepted in the project backlog Type: Enhancement New features or improved behavior
#486 opened Jul 25, 2018 by magicDGS
Force line-endings for UNIX on writers Priority: Medium Status: Accepted Accepted in the project backlog Type: Enhancement New features or improved behavior
#484 opened Jul 15, 2018 by magicDGS
Accept compressed gem-mappability inputs Priority: High Status: Accepted Accepted in the project backlog Type: Enhancement New features or improved behavior
#482 opened Jul 15, 2018 by magicDGS
Add more unit tests to gem-mappability classes Priority: Medium Status: Accepted Accepted in the project backlog Type: Test Increase test coverage or add more test cases
#481 opened Jul 15, 2018 by magicDGS
ComputeProperStatByWindow --stat does not show possible values in webpage ~barclay Priority: Critical Status: Blocked Blocked (in the project backlog) Type: Enhancement New features or improved behavior
#469 opened Jun 5, 2018 by magicDGS
1
Enhancements for ComputeProperStatByWindow Priority: Medium Status: Accepted Accepted in the project backlog Type: Epic Tasks that should be split in different issues
#466 opened Jun 5, 2018 by magicDGS
4 tasks
Decide defaults for RTReadWalker Priority: Low Status: Accepted Accepted in the project backlog Type: Question User/Developer question to be answer
#465 opened Jun 5, 2018 by magicDGS
Test RTHelpConstants static logging methods Status: Accepted Accepted in the project backlog Type: Enhancement New features or improved behavior Type: Test Increase test coverage or add more test cases
#460 opened Jun 1, 2018 by magicDGS
Improve output format for ProperStatWindowEngine Priority: Medium Status: Blocked Blocked (in the project backlog) Type: Enhancement New features or improved behavior
#459 opened Jun 1, 2018 by magicDGS
ProTip! What’s not been updated in a month: updated:<2024-08-29.