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fonda
Fonda is a framework which offers scalable and automatic analysis of multiple NGS sequencing data types
Apache License 2.0
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Bump jinja2 from 2.11.3 to 3.1.3 in /src/main/scripts
#235
dependabot[bot]
opened
7 months ago
1
correct build number
#233
madmongoose
closed
2 years ago
0
correct build number
#232
madmongoose
closed
2 years ago
1
Correcting a build number
#231
madmongoose
closed
2 years ago
1
Added Codecov actions
#230
madmongoose
closed
2 years ago
0
Added Codecov actions
#229
madmongoose
closed
2 years ago
0
GitHub Actions workflow for Fonda
#228
madmongoose
closed
2 years ago
2
Add --localmem argument to cellranger count tool
#227
kamyshova
closed
2 years ago
0
Fix CountTest for windows
#226
kamyshova
closed
2 years ago
0
Fix cufflinks cohort analysis for master mode
#225
kamyshova
closed
3 years ago
0
Update amplicon gatk recalibrate tool template
#224
kamyshova
closed
3 years ago
1
This PR fixes a bug with fail CountTest in windows
#223
ghost
closed
2 years ago
1
This PR resolves Issue 221
#222
ghost
closed
3 years ago
0
Extend a DnaCaptureVarFastq integration test for master mode
#221
kamyshova
closed
3 years ago
0
This PR resolves Issue 217
#220
ghost
closed
3 years ago
1
Skip launch of master script for test mode
#219
kamyshova
closed
3 years ago
0
Update README.md: contributors and publications
#218
kamyshova
closed
3 years ago
1
Extend a RnaExpressionFastq integration test for master mode
#217
kamyshova
closed
3 years ago
0
issue_215: Update dna_capture_var_fastq.py config jsons
#216
kamyshova
closed
3 years ago
1
Update DnaCapture dna_capture_var_fastq.py script and related json configs
#215
syansanofi
closed
3 years ago
1
issue_213: Add target_panel to middleware sc_rna
#214
syansanofi
closed
3 years ago
0
Add --target_panel opt in sc_rna_expression_cellranger_fastq
#213
syansanofi
closed
3 years ago
1
Middleware strategy
#212
syansanofi
opened
3 years ago
1
Middleware: add 'toolchain' parameter to sc_rna_expression_cellranger_fastq.py
#211
kamyshova
closed
3 years ago
0
issue #205: Preserve temporary files
#210
kamyshova
closed
3 years ago
0
issue #206: Add targeted expression panel to cellranger count_template.txt
#209
kamyshova
closed
3 years ago
0
issue #204: Tune option for Novoalign tool
#208
kamyshova
closed
3 years ago
1
issue #195: Implement new mutect2 variant calling strategy
#207
kamyshova
closed
3 years ago
2
cellranger count_template.txt add targeted expression panel
#206
syansanofi
closed
3 years ago
0
Preserve temporary files
#205
syansanofi
closed
3 years ago
3
Novoalign command reset
#204
syansanofi
closed
3 years ago
2
issue_#198: Update amplicon_gatk_recalibrate_tool_template
#203
kamyshova
closed
3 years ago
0
WGS pipeline parallelization
#202
kamyshova
opened
3 years ago
0
Create new sample mapping strategy for multiomics single cell
#201
kamyshova
opened
3 years ago
0
issue #196: Fix @RG tag in sam/bam file output
#200
kamyshova
opened
3 years ago
1
Extend logs for master mode
#199
kamyshova
closed
3 years ago
0
Update amplicon_gatk_recalibrate_tool_template
#198
syansanofi
closed
3 years ago
0
Combine PicardMarkDuplicate and PicardRemoveDuplicate into single tool
#197
syansanofi
opened
3 years ago
1
Fix @RG tag in sam/bam file output
#196
syansanofi
opened
3 years ago
0
Implement new mutect2 variant calling strategy
#195
syansanofi
closed
3 years ago
7
Change fonda exit in master mode
#194
kamyshova
closed
3 years ago
0
RnaExpression_Fastq - SecondaryAnalysis creates blocking problems
#193
syansanofi
closed
3 years ago
2
issue #190: Add gatk recalibration to ABRA aligner in PostAlignment
#192
kamyshova
closed
3 years ago
0
issue #189: Middleware Sample Manifest Fastq - include sample name parameter if it exists
#191
kamyshova
closed
3 years ago
0
Add gatk recalibration to ABRA aligner in PostAlignment
#190
syansanofi
closed
3 years ago
0
Middleware Sample Manifest Fastq- include samplename parameter
#189
syansanofi
closed
3 years ago
0
Bump jinja2 from 2.11.2 to 2.11.3 in /src/main/scripts
#188
dependabot[bot]
closed
3 years ago
1
Remove duplicate library entries if antibody samples having multiple lanes
#187
kamyshova
closed
3 years ago
0
issue#185: scRnaExpressionCellRangerFastq workflow - allow duplicate mapping for shared libraries
#186
kamyshova
closed
3 years ago
0
scRnaExpression_CellRanger_Fastq - sample manifest should allow duplicate mapping for shared libraries
#185
syansanofi
closed
3 years ago
0
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