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ccmbioinfo
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crg2
Research pipeline for exploring clinically relevant genomic variants
Apache License 2.0
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Update gnomAD SV annotations to v4.1
#233
Madelinehazel
opened
2 weeks ago
0
Str conda
#232
aarthi-mohan
closed
6 days ago
1
gnomad V4 update
#231
anjalijain22
opened
3 months ago
0
add GreenDB annotation
#230
pamelaxu213
closed
4 months ago
0
add hg37 GreenDB annotations
#229
pamelaxu213
closed
3 months ago
0
add GreenDB annotation
#228
pamelaxu213
closed
4 months ago
0
get cram from iRods archive
#227
Madelinehazel
closed
4 months ago
1
Crg2 hg38
#226
pamelaxu213
closed
4 months ago
0
changed to CADD1.7
#225
pamelaxu213
closed
4 months ago
0
Crg2 hg38 mital cadd1.7
#224
pamelaxu213
closed
4 months ago
0
Alphamissense annotation for hg38
#223
anjalijain22
opened
4 months ago
0
Look at combining hg19 and hg38 branches into one branch
#222
Madelinehazel
opened
4 months ago
0
Consolidate and move annotation files
#221
Madelinehazel
opened
4 months ago
0
Add ReMM score to crg2-hg38
#220
Madelinehazel
opened
4 months ago
1
AlphaMissense for hg38
#219
anjalijain22
opened
4 months ago
0
Update CADD to v1.7
#218
pamelaxu213
opened
4 months ago
0
add ncER, ReMM, and LINSIGHT scores
#217
Madelinehazel
closed
5 months ago
0
add AlphaMissense scores to small variant report
#216
Madelinehazel
closed
5 months ago
0
PacBio compatibility, remove -path argument
#215
Madelinehazel
closed
6 months ago
0
mity v1.0.0 update
#214
il-abbasi
opened
7 months ago
0
added ncER score annotation to vcfanno
#213
il-abbasi
closed
4 months ago
0
crg2 benchmark on GRCh38 using NIST v4.2.1 GIAB samples
#212
il-abbasi
opened
7 months ago
0
Adding FATHMM-XF into annotation pipeline with new branch: rvaran/FATHMM-XF
#211
r-varan
closed
7 months ago
0
Upgrade mity to v1.0.0 for GRCh37 crg2 pipeline
#210
anjalijain22
opened
7 months ago
0
Incorporate LINSIGHT into annotation pipeline
#209
suzanahmad
closed
7 months ago
0
Incorporate FATHMM-XF into annotation pipeline
#208
Madelinehazel
opened
8 months ago
0
Add phasing information to report
#207
Madelinehazel
closed
8 months ago
1
Incorporate ncER into annotation pipeline
#206
Madelinehazel
opened
8 months ago
0
Adjust resources for annot_caller rule
#205
anjalijain22
closed
8 months ago
0
Sort platypus VCF
#204
Madelinehazel
closed
8 months ago
0
Incorporate LINSIGHT into annotation pipeline
#203
Madelinehazel
opened
8 months ago
1
Report generation: trio report using slivar
#202
pamelaxu213
opened
9 months ago
0
UTRAnnotator 5'UTR variants
#201
pamelaxu213
opened
9 months ago
0
Non-coding variant effect prediction: DeepFormer
#200
Madelinehazel
opened
9 months ago
0
Non-coding variant effect prediction: SEI
#198
Madelinehazel
opened
9 months ago
0
Non-coding variant effect prediction: DeepCT
#197
Madelinehazel
opened
9 months ago
0
Mosaic SV/CNVs?
#196
Madelinehazel
opened
10 months ago
0
GATK-DRAGEN variant calling
#195
Madelinehazel
opened
10 months ago
0
PhenoSV for structural variant prioritization
#194
Madelinehazel
opened
10 months ago
0
Protein domains
#193
Madelinehazel
opened
10 months ago
0
RegVar 3'UTR
#192
Madelinehazel
opened
10 months ago
0
SV reports: add in read depth and alt allele depth (and maybe genotype)
#191
Madelinehazel
opened
10 months ago
0
Benchmark hg38: WGS
#190
Madelinehazel
opened
10 months ago
0
Benchmark hg38: WES
#189
Madelinehazel
opened
10 months ago
0
PacBio: phasing for small variant reports
#188
Madelinehazel
closed
5 months ago
0
STRs for hg38
#187
Madelinehazel
opened
10 months ago
0
Non-coding variant annotation: GREEN-DB
#186
Madelinehazel
closed
2 months ago
0
Non-coding variant effect prediction: JARVIS and gwRVIS
#185
Madelinehazel
closed
8 months ago
1
AlphaMissense
#184
Madelinehazel
closed
5 months ago
0
gnomAD update
#183
Madelinehazel
opened
10 months ago
0
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