Releases · d3b-center/OpenPedCan-manuscript

What's Changed

add ticket and PR templates by @ewafula in #1
Update content file structure by @ewafula in #2
Update outline by @jharenza in #13
Add independent sample selection methods by @logstar in #22
add R. Corbett to authors list by @rjcorb in #34
add focal-cn-methods by @rjcorb in #23
Adding author: Saksham Phul by @sakshamphul in #33
Add Alex Sickler to authors by @sickler-alex in #35
Add author info KK by @kelseykeith in #32
Add methylation analysis methods by @ewafula in #21
Added Project Dataset Descriptions by @kelseykeith in #18
rnaseq summary stats methods by @ewafula in #29
Add manuscript author info for Sangeeta Shukla by @sangeetashukla in #36
Outline and update the Data and Code Availability section in Methods by @sangeetashukla in #20
Updated manuscript: Add IHG, ATRT, and neuroblastoma subtyping by @zzgeng in #19
Updated methods section to describe process for liftover of gene symbols by @sangeetashukla in #26
Add consensus CNV calling in method section by @zzgeng in #24
Update metadata.yaml by @chinwallaa in #37
Format the list of OPC modules in markdown table by @sangeetashukla in #39
Updated Methods section Gene Expression subsection for DESeq by @sangeetashukla in #30
Added header to and formatted the OPC module markdown table by @sangeetashukla in #41
Update methods by @atlas4213 in #17
Update methods to include SNV consensus analyses by @zzgeng in #25
Add author YZ by @logstar in #40
add deanne as author by @jharenza in #42
add alvin to author list by @jharenza in #44
Adding Aditya Lahiri as author by @adilahiri in #45
cleanup on some remaining columns, rearrange some text by @jharenza in #43
Added fusion_filtering module description to methods by @kelseykeith in #46
Add author hilldd by @atlas4213 in #38
Add Zhuangzhuang to author list by @zzgeng in #49
Update metadata.yaml by @zoomzoom1011 in #50
Adding Matthew Lueder to the author list by @luederm in #51
Add description to the Tumor Mutation Burden subsection in Methods section by @sangeetashukla in #47
Updated intro section by @sangeetashukla in #52
Fix manubot failure by @zzgeng in #59
Adding manubot privs by @devbyaccident in #60
splicing method by @naqvia in #65
pull build from OpenPBTA ms by @jharenza in #68
Add tumor only SNV calling methods (1/2) by @jharenza in #64
Cnv tumor only methods by @jharenza in #78
add miRNA methods by @jharenza in #76
Update manubot yaml to preview MS/check spelling by @jharenza in #82
add NIH methylation classifier information by @jharenza in #77
Update README page to OpenPedCan content by @jharenza in #81
Add proteogenomic methods by @jharenza in #80
update molecular subtyping methods by @rjcorb in #86
add liftover methods by @jharenza in #67
add PPTC and Maris cohort information by @jharenza in #88
transfer change to previous PR by @zzgeng in #89
Author order based on contributions by @jharenza in #90
add JMM, ST, update contributions based on OPC, not MTP by @jharenza in #91
update authors based on 2024-06-04 contributions by @jharenza in #95
Add updated mutsigs methods by @rjcorb in #96
add methylation/mionco authors by @jharenza in #98
Fix subtyping headers by @rjcorb in #100
Add abstract, update author order, add figures, supp table by @jharenza in #99