Owner

GW-HIVE

7 indexed repositories · View on GitHub

bioxpress
Documentation: https://bioxpress.readthedocs.io/en/latest/

Python · 1 star
PredictMod
PredictMod

Python · 1 star
glygen-frontend

JavaScript · 0 stars
time-off-requests
Repository for time-off requests approvals

0 stars
hivelab

HTML · 0 stars
biomuta-old
Documentation: https://biomuta.readthedocs.io/en/latest/

Python · 0 stars
biomuta

Python · 0 stars

Open All

Evidence color database Open

GW-HIVE/glygen-frontend#12 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 17, 2026
images Open

GW-HIVE/glygen-frontend#16 · 11 comments · 0 reactions · 0 assignees · Indexed Sep 17, 2026
Time off request (August 11th and August 12th) Open

GW-HIVE/time-off-requests#24 · 1 comment · 0 reactions · 0 assignees · Indexed Sep 17, 2026
Shared cookies/state across applications Open

GW-HIVE/hivelab#58 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 17, 2026
Integrate BioXpress documentation using sphinx and ReadTheDocs Open

GW-HIVE/bioxpress#1 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 17, 2026
Investigate Read the Docs Issue with updating main vs. latest Open

GW-HIVE/bioxpress#2 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
BioXpress ReadTheDocs Notes Open

documentation

GW-HIVE/bioxpress#6 · 2 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
cBioPortal mRNA expression Z-scores API endpoints Open

GW-HIVE/bioxpress#7 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
cBioPortal mRNA expression Z-scores information Open

GW-HIVE/bioxpress#8 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
Download and extract entrez gene IDs Open

GW-HIVE/bioxpress#17 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
cBioPortal mRNA expression data Open

GW-HIVE/bioxpress#21 · 2 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
Explore cBioPortal Open

GW-HIVE/biomuta-old#5 · 4 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
BioMuta and BioXpress files Open

GW-HIVE/biomuta-old#6 · 1 comment · 0 reactions · 1 assignee · Indexed Sep 17, 2026
BioMuta Pipeline information Open

GW-HIVE/biomuta-old#7 · 7 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
Include COSMIC Mutational Signatures in the BioMuta source datasets Open

enhancement

GW-HIVE/biomuta-old#8 · 2 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
Write a description of the cBioPortal pipeline in README.md Open

documentation

GW-HIVE/biomuta-old#10 · 2 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
DO names Open

question

GW-HIVE/biomuta-old#11 · 2 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
Polishing scripts Open

documentation enhancement

GW-HIVE/biomuta-old#14 · 3 comments · 0 reactions · 2 assignees · Indexed Sep 17, 2026
github cheat sheet Open

good first issue

GW-HIVE/biomuta-old#15 · 1 comment · 0 reactions · 1 assignee · Indexed Sep 17, 2026
RefSeqMrnaId -> UniProt accession mapping Open

enhancement

GW-HIVE/biomuta-old#16 · 7 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
utils Open

GW-HIVE/biomuta-old#22 · 1 comment · 0 reactions · 1 assignee · Indexed Sep 17, 2026
Housecleaning Notes Open

documentation

GW-HIVE/biomuta-old#25 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
Parse gff notes Open

enhancement

GW-HIVE/biomuta-old#26 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
Restrict DO names to the preapproved list Open

enhancement

GW-HIVE/biomuta-old#28 · 1 comment · 0 reactions · 1 assignee · Indexed Sep 17, 2026
Filtering steps Open

bug

GW-HIVE/biomuta-old#30 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
Add filtering steps to fetch_mutations.sh Open

GW-HIVE/biomuta-old#31 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
Create symlinks Open

GW-HIVE/biomuta-old#32 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
Edit documentation Open

GW-HIVE/biomuta-old#33 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
User confirmation from 1_generate_cancer_do_json.py Open

GW-HIVE/biomuta-old#34 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
Add a step after 1_generate_cancer_do_json.py Open

GW-HIVE/biomuta-old#35 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
clinical-information.csv documentation Open

GW-HIVE/biomuta-old#36 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
1_chr_pos_to_bed.py improve logging Open

GW-HIVE/biomuta-old#37 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
Improve logging 2_liftover.sh Open

GW-HIVE/biomuta-old#38 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
Write all logs to the logging dir Open

GW-HIVE/biomuta-old#39 · 1 comment · 0 reactions · 1 assignee · Indexed Sep 17, 2026
Improve parse_gff_opt.py logs Open

GW-HIVE/biomuta-old#40 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
Download and parse new GFF3 release Open

GW-HIVE/biomuta-old#41 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
Add a download step Open

GW-HIVE/biomuta-old#42 · 2 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
3_2_ensp_to_uniprot_api_updated.sh - merge failed IDs at the end Open

GW-HIVE/biomuta-old#43 · 1 comment · 0 reactions · 1 assignee · Indexed Sep 17, 2026
Add sorting step to `combine_step3` Open

GW-HIVE/biomuta-old#44 · 1 comment · 0 reactions · 1 assignee · Indexed Sep 17, 2026
Use a variable instead of hardcoding filename Open

GW-HIVE/biomuta-old#45 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
Which script adds a header to `final_cbio_table.csv`? Open

GW-HIVE/biomuta-old#46 · 1 comment · 0 reactions · 1 assignee · Indexed Sep 17, 2026
Script that checks if the docker container has stopped running Open

GW-HIVE/biomuta-old#48 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
More robust QC to be ready for GlyGen Open

GW-HIVE/biomuta-old#49 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
Add download step: ENSEMBL gtf Open

GW-HIVE/biomuta-old#50 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
Down notifications for BioMuta-BioXpress Open

GW-HIVE/biomuta-old#51 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
Add link for documentation to BioMuta Open

GW-HIVE/biomuta-old#52 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
Update BioMuta with GlyGen data version Open

GW-HIVE/biomuta-old#53 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
BM priority order Open

GW-HIVE/biomuta-old#54 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
Biomuta Portal Update - Collections Open

data

GW-HIVE/biomuta#4 · 1 comment · 0 reactions · 1 assignee · Indexed Sep 17, 2026
C_biomuta_mutation_eff Open

data

GW-HIVE/biomuta#7 · 2 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026

GW-HIVE

Get new issues in your inbox