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d3b-center
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OpenPedCan-analysis
The analysis repository for the Open Pediatric Cancer Project
https://d3b-center.github.io/OpenPedCan-analysis/
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EGFR in DMG
#617
jharenza
closed
1 week ago
1
Update README.md
#616
jharenza
closed
1 week ago
1
move CPTAC GBM to adult tumor group
#615
jharenza
closed
2 weeks ago
1
Updated analysis: Update LGG FGFR1 mutations for FGFR subtype
#614
jharenza
closed
1 week ago
2
Pineoblastoma subtyping - create umap
#613
jharenza
closed
1 week ago
2
New data: CMI/DGD tumor only, DGD T/N, Organoid RNA-Seq
#612
jharenza
closed
1 week ago
2
consensus SNVs - lancet rerun needed
#611
jharenza
closed
1 week ago
2
Manual cancer_group assigned for select sample_id with discordant pathology_diagnosis
#610
sangeetashukla
closed
2 months ago
1
Does GTEX data contain adults' tissue?
#609
guodudou2
closed
2 months ago
3
Add pediatric brain normals from GSE243682
#608
jharenza
closed
1 week ago
1
discordant pathology diagnosis and cancer group columns for DIPG samples
#607
rjcorb
closed
2 months ago
1
Updated analysis: add file types to pre-release QC
#606
jharenza
closed
1 week ago
1
rerun immune-deconv with v15
#605
komalsrathi
closed
3 months ago
2
Add CNVkit theta2 seg file to OPC v16
#604
jharenza
closed
1 week ago
1
Add HLA typing results to OPC
#603
jharenza
closed
1 week ago
1
update MB SHH abridged output
#602
rjcorb
closed
2 months ago
3
Previously missing PB subtypes added
#601
sangeetashukla
closed
3 months ago
1
Undo cancer_group manual override for select sample_ID as per OPC_566
#600
sangeetashukla
closed
3 months ago
1
Updated analysis: fix MB SHH subtyping abridged output file
#599
rjcorb
closed
2 months ago
1
Add unpaired normal BS IDs to OPC v16 histologies
#598
rjcorb
closed
1 week ago
1
Update WGS & WXS independent specimens
#597
rjcorb
closed
1 week ago
6
rerun tables for manuscript
#596
jharenza
closed
4 months ago
1
rerun author contributions for biorxiv submission - as of July 9
#595
jharenza
closed
4 months ago
1
Rjcorb/569 mb shh umap
#594
rjcorb
closed
4 months ago
1
Pathology review of MB samples with high-conf other subtypes needed
#593
jharenza
closed
1 week ago
1
HOPE tumor_only sub_cohort missing `germline_sex_estimate` annotation as "Unknown"
#592
jharenza
closed
1 week ago
1
CNV consensus w freec wxs
#591
jharenza
closed
4 months ago
1
Updated analysis: add PPTID to PB subtyping
#590
jharenza
closed
2 months ago
1
Updated analysis: consensus CN - XY chrs have artifactual calls
#589
jharenza
closed
4 months ago
2
Update manuscript: Generate tables
#588
zzgeng
closed
4 months ago
0
Check DIPG cancer groupings
#587
jharenza
closed
2 months ago
1
Add treatment info to V16
#586
migbro
closed
1 week ago
1
Rokita/author template
#585
jharenza
closed
5 months ago
1
add compiled figure, rerun
#584
jharenza
closed
5 months ago
0
Manuscript: Add percentage to pie chart
#583
zzgeng
closed
5 months ago
1
remove gitignore til GHA works
#582
jharenza
closed
4 months ago
1
update branch to dev for contributions yaml job
#581
jharenza
closed
5 months ago
0
Generate plot/counts for the manuscript
#580
zzgeng
closed
5 months ago
3
Collect the list for packages/software version
#579
zzgeng
closed
5 months ago
1
Create workflow to update yaml file for manuscript
#578
jharenza
closed
5 months ago
0
Updated analysis: add exome capture samples to testing data
#577
jharenza
closed
1 week ago
1
⚰️ Remove pull_request condition from build workflow
#576
devbyaccident
closed
5 months ago
0
update build token/user and docker packages
#575
jharenza
closed
6 months ago
0
Upgrade snakemake
#574
sickler-alex
closed
6 months ago
1
Module contribution counts
#573
jharenza
closed
5 months ago
2
re-org docker file, upgrades
#572
jharenza
closed
6 months ago
0
move analysis module action
#571
jharenza
closed
5 months ago
1
add UMAP script
#570
rjcorb
closed
4 months ago
2
Updated analysis: add code to generate methylation UMAP for MB SHH samples
#569
rjcorb
closed
4 months ago
0
update R and bioconductor versions
#568
jharenza
closed
6 months ago
0
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