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AlexsLemonade
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OpenPBTA-analysis
The analysis repository for the Open Pediatric Brain Tumor Atlas Project
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Re-generate GSVA and UMAP panels
#1511
sjspielman
closed
2 years ago
1
Re-generate tables
#1510
sjspielman
closed
2 years ago
1
Re-generate Table S1
#1509
sjspielman
closed
2 years ago
1
Re-generate Table S2
#1508
sjspielman
closed
2 years ago
1
Re-generate Table S4
#1507
sjspielman
closed
2 years ago
1
Re-generate Table S3
#1506
sjspielman
closed
2 years ago
1
Re-generate Table 2
#1505
sjspielman
closed
2 years ago
1
Re-generate Table 1
#1504
sjspielman
closed
2 years ago
1
Re-run focal-cn-file-preparation module
#1503
sjspielman
closed
2 years ago
1
Re-run immune deconvolution module
#1502
sjspielman
closed
2 years ago
1
Re-run oncoprint-landscape module with V22
#1501
sjspielman
closed
2 years ago
2
Re-compile Figure S6
#1500
sjspielman
closed
2 years ago
3
Re-compile Figure S4
#1499
sjspielman
closed
2 years ago
2
Re-compile Figure S3
#1498
sjspielman
closed
2 years ago
2
Re-compile Figure S2
#1497
sjspielman
closed
2 years ago
1
Re-generate supplemental UMAP figures
#1496
sjspielman
closed
2 years ago
3
Re-generate tmb compare panels for Figure S2
#1495
sjspielman
closed
2 years ago
3
Re-generate snv-callers panels for Figure S2
#1494
sjspielman
closed
2 years ago
1
Re-compile Figure S5
#1493
sjspielman
closed
2 years ago
1
Re-generate S5 panels
#1492
sjspielman
closed
2 years ago
0
Re-generate Figure 5 GSEA and UMAP panels
#1491
sjspielman
closed
2 years ago
0
Re-compile Figure 5
#1490
sjspielman
closed
2 years ago
1
Re-compile Figure 4
#1489
sjspielman
closed
2 years ago
1
Re-compile Figure 3
#1488
sjspielman
closed
2 years ago
3
Re-generate OpenPBTA manuscript display items
#1487
sjspielman
closed
2 years ago
3
Copy interaction plot to figures/pdfs
#1486
sjspielman
closed
2 years ago
0
Re-compile Figure 2
#1485
sjspielman
closed
2 years ago
2
Update Figure 2: oncoprint plots
#1484
sjspielman
closed
2 years ago
0
Re-compile Figure 1
#1482
sjspielman
closed
2 years ago
1
Updated analysis: Update Table 2 - hypermutators
#1481
jharenza
closed
2 years ago
1
V22 rerun figures for survival/tp53 telomerase
#1480
jharenza
closed
2 years ago
7
Re-run focal-cn-file-preparation with subtyped V22
#1479
sjspielman
closed
2 years ago
10
Re-run oncoprint-landscape module with V22
#1478
sjspielman
closed
2 years ago
16
Apply GitHub PAT via Docker secrets
#1477
jashapiro
closed
2 years ago
0
Re-run mutational signatures module with V22
#1476
sjspielman
closed
2 years ago
5
Re-run and update telomerase module for V22
#1475
sjspielman
closed
2 years ago
0
Discussion: Cancer groups in V22 figures
#1474
sjspielman
closed
2 years ago
6
Try using devtools for github installs
#1473
jashapiro
closed
2 years ago
1
Deprecate packages to "avoid" rate limit
#1472
sjspielman
closed
2 years ago
4
Re-run chromothripsis module with V22
#1471
sjspielman
closed
2 years ago
4
Split out analyses from figures script
#1470
sjspielman
closed
2 years ago
0
Add GitHub PAT to Docker builds in CircleCI to allow us to install R packages from GitHub without rate limiting
#1469
jaclyn-taroni
closed
2 years ago
2
Fix mutational signatures CI bug
#1468
sjspielman
closed
2 years ago
0
Update CAVATICA project with V22 release data
#1467
jharenza
closed
2 years ago
2
V22 rerun survival figures
#1466
jharenza
closed
2 years ago
3
Update Table 1 with distinct counts
#1465
jashapiro
closed
2 years ago
0
Re-run survival with V22
#1464
sjspielman
closed
2 years ago
1
Re-run GSEA module with V22
#1463
sjspielman
closed
2 years ago
2
Update table 1 to remove duplicates & update ms tables to v22
#1462
jashapiro
closed
2 years ago
2
Re-run tp53_nf1_score module with v22
#1461
sjspielman
closed
2 years ago
2
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