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ejh243
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BrainFANS
Complex Disease Epigenomics Group's quality control and analysis pipelines for DNA methylation arrays, SNP arrays, BS-Seq, ATAC-Seq and ChIP-Seq
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[Code Refactor]: only run cortical clock for brain samples
#229
ew367
opened
1 day ago
0
156 code refactor unneeded download files
#228
ejh243
opened
5 days ago
3
Make the git tag only show the version number
#227
sof202
closed
5 days ago
0
[Bug]: Full git tag is shown on QC rmd report
#226
sof202
closed
5 days ago
1
[Enhancement suggestion]: GitHub description
#225
sof202
closed
5 days ago
2
[Code Refactor]: Multiple variables currently exist for same data (Sentrix_ID and _Position)
#224
ew367
opened
1 week ago
0
[Enhancement suggestion]: Adapt checkColnamesSampleSheet.r script to check that all basenames are unique
#223
ew367
closed
1 week ago
1
add missing libraries and correct bug
#222
ew367
closed
1 week ago
4
[Bug]: installLibraries.r script contains errors and is missing libraries essential to run QC.rmd
#221
ew367
opened
1 week ago
0
Remove tech var and bio var variables
#220
ew367
closed
1 week ago
2
fix: PCs identified text showing incorrect number
#219
sof202
closed
1 week ago
0
fix: predictedduplicates containing empty strings
#218
sof202
closed
1 week ago
1
Add repository version to QC rmarkdown
#217
sof202
closed
5 days ago
2
[Enhancement suggestion]: Remove techVar and bioVar variables and replace with hardcoded Sentrix_ID and Sentrix_Position and optional project variables (projVar)
#216
ew367
closed
1 week ago
2
feat: Add more error logging to DNAm pipeline
#215
sof202
opened
1 week ago
3
[Bug]: QC Report Section 4.2 reconfirming genetic relationships
#214
Molly-Endicott
closed
1 week ago
0
[Enhancement suggestion]: Add stops on unsuccessful scripts
#213
sof202
opened
1 week ago
0
[Enhancement suggestion]: qual summary stats
#212
ejh243
opened
1 week ago
1
[Enhancement suggestion]: QC report add document code version
#211
ejh243
closed
5 days ago
0
[Enhancement suggestion]: update dasen to dasen.adj
#210
ejh243
opened
1 week ago
1
refactor: checkRconfig
#209
sof202
closed
1 week ago
0
184 check r config
#208
ew367
closed
1 week ago
5
Bump send and express in /documentation
#207
dependabot[bot]
closed
2 weeks ago
0
Bump serve-static and express in /documentation
#206
dependabot[bot]
closed
2 weeks ago
0
Bump body-parser and express in /documentation
#205
dependabot[bot]
closed
2 weeks ago
0
Bump express from 4.19.2 to 4.21.0 in /documentation
#204
dependabot[bot]
closed
2 weeks ago
1
Bump dompurify from 3.0.8 to 3.1.6 in /documentation
#203
dependabot[bot]
closed
2 weeks ago
0
update file to include arrayType parameter
#202
ew367
closed
2 weeks ago
1
[Bug]: config.example.r file is missing "arrayType" variable parameter
#201
ew367
closed
2 weeks ago
3
Cell ewas methods
#200
ejh243
closed
2 weeks ago
2
[Code Refactor]: installLibraries.r script contains unecessary code
#199
ew367
closed
2 weeks ago
2
[Bug]: clusterCellTypes.r script doesn't work when phenotype info is not available
#198
ew367
opened
3 weeks ago
1
fix diagnostic plot case where no samples are genetically identical
#197
ejh243
closed
3 weeks ago
0
[Bug]: Bug in QC.rmd from microarray QC pipeline
#196
dmsoanes
closed
3 weeks ago
1
[Bug]: Principal component analysis for autosomal probes
#195
Molly-Endicott
closed
1 week ago
2
revert snpCor diagonal to 1s to correctly identify unique individuals
#194
ejh243
closed
3 weeks ago
0
[Bug]: miscalculating genetically unique individuals in the QC report
#193
Molly-Endicott
closed
3 weeks ago
1
[Enhancement suggestion]: Pfilter for probe removal
#192
eld211
opened
3 weeks ago
2
Bump micromatch from 4.0.5 to 4.0.8 in /documentation
#191
dependabot[bot]
closed
3 weeks ago
0
Bump braces from 3.0.2 to 3.0.3 in /documentation
#190
dependabot[bot]
closed
3 weeks ago
0
Bump webpack from 5.90.0 to 5.94.0 in /documentation
#189
dependabot[bot]
closed
4 weeks ago
3
[Bug]: technical variables summary never shows
#188
sof202
closed
1 week ago
2
refactor: simplify conditional logic
#187
sof202
closed
3 weeks ago
0
[Code Refactor]: messy conditional logic in CETYGOdeconvolution.r
#186
sof202
closed
3 weeks ago
0
Extracting chromosome and design type from EPIC V1 manifest in ctCheck.rmd
#185
AnthonyKl98
opened
1 month ago
1
[Enhancement suggestion]: Check variables exist before execution
#184
ejh243
closed
1 week ago
1
[Bug]: `cellType` is not defined in CETYGOdeconvolution.R
#183
sof202
closed
1 month ago
1
refactor: remove nested c calls
#182
sof202
closed
3 weeks ago
0
[Code Refactor]: nested c() calls
#181
sof202
closed
3 weeks ago
0
fix: Assign NA values instead of filtering snpCor
#180
sof202
closed
1 month ago
4
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