cognoma cancer-data issues

cognoma / cancer-data

TCGA data acquisition and processing for Project Cognoma

Other

20 stars 28 forks source link

issues

Newest

Newest Most commented Recently updated Oldest Least commented Least recently updated

Add cancer-type codes to mapping

#48 gwaybio closed 6 years ago
3
Add recurrent solid & metastatic samples

#47 dhimmel closed 6 years ago
2
Retain Metastatic Tumors

#46 gwaybio closed 6 years ago
6
Move diseases.tsv to data

#45 dhimmel closed 6 years ago
1
Retain zero-mutation samples

#44 dhimmel closed 6 years ago
7
Filtering samples is (potentially) too strict

#43 gwaybio closed 6 years ago
22
Modernize repo: readme updates & LFS

#42 dhimmel closed 6 years ago
3
Update Data for April 2018 TCGA PanCanAtlas Data Release

#41 gwaybio closed 6 years ago
2
TCGA PanCanAtlas Paper/Data Release

#40 gwaybio closed 6 years ago
12
Treehouse Childhood Cancer Initiative

#39 gwaybio opened 7 years ago
5
Much Richer Sample Clinical Data

#38 gwaybio opened 7 years ago
9
Recurrence and Distant Metastasis

#37 binaypanda opened 7 years ago
1
Invalid gene in mutation-matrix.tsv.bz2 on figshare v5

#36 dhimmel closed 7 years ago
1
Melt mutation matrix for use by core-service repository.

#35 stephenshank closed 7 years ago
1
Reshape mutation matrix for use by core-service repository

#34 stephenshank closed 5 years ago
3
Dual license repository as BSD & CC0

#33 dhimmel closed 8 years ago
1
Outsource Entrez Gene logic to cognoma/genes

#32 dhimmel closed 8 years ago
6
Compute differential expression (tumor versus normal in paired samples) for cancers

#31 dhimmel opened 8 years ago
7
Extract gene information

#30 dhimmel closed 8 years ago
2
[WIP] Create JSON files for frontend consumption

#29 dhimmel opened 8 years ago
4
Export complete data

#28 dhimmel closed 8 years ago
0
Add disease acronyms and update covariates.tsv

#27 dhimmel closed 8 years ago
2
Acronyms for diseases

#26 dhimmel closed 8 years ago
8
Create sample-by-pathway dataset

#25 stephenshank closed 5 years ago
2
Encodes categorical covariates from samples dataset.

#24 stephenshank closed 8 years ago
0
Export a gene information table

#23 dhimmel closed 8 years ago
1
Add exploratory analyses of mutation data

#22 dhimmel closed 8 years ago
9
Precomputing a sample × mutation-in-gene-set matrix

#21 stephenshank opened 8 years ago
7
Extract sample info from PANCAN_clinicalMatrix

#20 dhimmel closed 8 years ago
13
Add figshare link to README

#19 dhimmel closed 8 years ago
1
Sanitize notebook cell numbers, update HiSeqV2

#18 dhimmel closed 8 years ago
2
Generate comprehensive comparisons between RNAseq, Mutation, and Clinical Matrix

#17 gwaybio closed 8 years ago
2
Current Xena PANCAN_mutation dataset is missing some samples and variables from a previous release

#16 gwaybio opened 8 years ago
12
Extract detailed mutation information for TCGA samples

#15 gwaybio opened 8 years ago
2
Variable documentation for Xena Browser's PANCAN_clinicalMatrix

#14 Inquisitive-Geek closed 8 years ago
8
Identify the types of clinical data fields for the django team

#13 cgreene opened 8 years ago
2
Map mutation gene symbols to Entrez IDs

#12 clairemcleod closed 8 years ago
12
exploring the data

#11 ypar opened 8 years ago
3
Process the clinical matrix to extract sample attributes

#10 ypar closed 8 years ago
10
Persistent storage of matrices that enables quick indexed lookup

#9 dhimmel opened 8 years ago
4
Map HiSeqV2 symbols to entrez gene IDs

#8 dhimmel closed 8 years ago
4
Process data into expression and mutation matrices

#7 dhimmel closed 8 years ago
5
Converting Xena datasets to standard identifiers rather than gene symbols

#6 dhimmel closed 8 years ago
7
Repository licensing options that are appropriate for non-code content

#5 dhimmel closed 8 years ago
9
Gene names converted to dates in Xena's PANCAN_mutation dataset

#4 dhimmel opened 8 years ago
5
Licensing of the Xena TCGA Pan-Cancer Data

#3 dhimmel closed 8 years ago
6
Which types of mutation effects should be ignored?

#2 dhimmel opened 8 years ago
5
Create a data/notebook repository framework and download TCGA data

#1 dhimmel closed 8 years ago
1