Chris Wright
|
abbd3537ec
|
Bring up to date
|
2026-04-17 12:29:57 +00:00 |
|
Sarah Griffiths
|
85b767358c
|
Filter out unstranded annotations and log warning [CW-6125]
|
2025-06-20 08:43:15 +00:00 |
|
Sarah Griffiths
|
11c9221edc
|
memory ci config
|
2025-04-15 11:20:42 +00:00 |
|
Sarah Griffiths
|
f9bd2ab574
|
Error message if ref_genome and ref_annotation mismatch CW-2965
|
2025-03-14 19:06:47 +00:00 |
|
Neil Horner
|
937a41f2cc
|
Update memory for split_bam and build_minimap_index_transcriptome
|
2025-01-03 17:06:38 +00:00 |
|
Neil Horner
|
c8c5922965
|
Access to undefined channel output bug CW-5398
|
2024-12-13 11:51:04 +00:00 |
|
Neil Horner
|
0a5c39cdf4
|
Account for stringtie multigene transcript artefacts
|
2024-12-12 14:30:31 +00:00 |
|
Sarah Griffiths
|
14fe76dabc
|
CW-4613 IGV config
|
2024-09-06 09:27:56 +00:00 |
|
Neil Horner
|
0200514536
|
Remove fusion detection [CW-4552]
|
2024-08-06 20:20:19 +00:00 |
|
Sarah Griffiths
|
57c0f5b303
|
Handle annotations with no strand CW-3998
|
2024-06-25 13:08:32 +00:00 |
|
Neil Horner
|
cfa41f16d0
|
BAM input CW-3512
|
2024-06-04 09:25:31 +00:00 |
|
Sarah Griffiths
|
595aae4006
|
Template update
|
2024-04-03 09:47:29 +00:00 |
|
Sarah Griffiths
|
e30d3aec98
|
DE_analysis params change input types to numeric
|
2024-02-16 10:23:15 +00:00 |
|
Neil Horner
|
d5b0cc6203
|
JAFFAL resources
|
2024-02-12 15:25:19 +00:00 |
|
Sarah Griffiths
|
4bb02049ec
|
Resource updates
|
2024-02-12 10:20:02 +00:00 |
|
Sarah Griffiths
|
bf136640ed
|
No ref annotation workflow still completes
|
2024-02-07 22:50:04 +00:00 |
|
Sarah Griffiths
|
35dc9dd722
|
pychopper parameters clear up
|
2023-12-04 21:12:57 +00:00 |
|
Sarah Griffiths
|
045a077fe1
|
docs update
|
2023-12-01 12:36:33 +00:00 |
|
Sarah Griffiths
|
f683d44411
|
CW-2769 remove denovo
|
2023-09-27 08:02:00 +00:00 |
|
Sarah Griffiths
|
edf3a24315
|
deal with transcriptome fasta headers that contains |
|
2023-09-06 20:18:40 +00:00 |
|
Sarah Griffiths
|
d535778497
|
add titles
|
2023-08-08 11:18:15 +00:00 |
|
Neil Horner
|
285e7c8ecf
|
Remove unused parameter
|
2023-07-26 21:09:29 +00:00 |
|
Sarah Griffiths
|
ec3c346fd8
|
fix and test for files with no gene id in attributes
|
2023-07-26 18:14:00 +00:00 |
|
Sarah Griffiths
|
df6c9a2a31
|
CW-2313 remove condition sheet requirement
|
2023-07-10 16:45:32 +00:00 |
|
Sam Nicholls
|
542f822ca6
|
Reconcile template
|
2023-07-04 10:13:05 +00:00 |
|
Sarah Griffiths
|
9f449ae467
|
CW-2188 add test for denovo plus warnings
|
2023-06-14 13:21:27 +00:00 |
|
Sarah Griffiths
|
ab275b6440
|
CW-1920-Annotation-file-types
|
2023-05-31 20:48:35 +00:00 |
|
Sarah Griffiths
|
1d5fcdd211
|
transcriptomes mac ci arm 64
|
2023-05-16 20:54:23 +00:00 |
|
Sarah Griffiths
|
43e746f0ea
|
schema updates
|
2022-12-01 21:05:01 +00:00 |
|
Sarah Griffiths
|
5de212cf57
|
Move data to AWS
|
2022-11-16 18:49:53 +00:00 |
|
Sarah Griffiths
|
cd1f97de4e
|
CW-1162 option to run DE without assembly transcriptome
|
2022-11-16 12:16:38 +00:00 |
|
Neil Horner
|
e339446a8a
|
Fix for when JAFFAL returns exit status 1 when no fusions are found
|
2022-11-15 19:56:46 +00:00 |
|
Sarah Griffiths
|
0758f4ab51
|
demo data de
|
2022-11-08 18:07:44 +00:00 |
|
Sarah Griffiths
|
c6b6121491
|
CW-649
|
2022-08-23 19:15:46 +00:00 |
|
Neil Horner
|
956c80573a
|
Fusions
|
2022-08-01 12:01:01 +00:00 |
|
Thomas Rich
|
7a61c04ed9
|
Update nextflow_schema.json
|
2022-07-27 14:35:40 +00:00 |
|
Neil Horner
|
458ac5d274
|
Initial port of ref-isoforms to Nextflow
|
2021-12-08 14:34:07 +00:00 |
|
Chris Wright
|
7e013608f9
|
Remove macos run
|
2021-04-29 16:16:33 +01:00 |
|
Chris Wright
|
57ff953621
|
mac docker
|
2021-04-29 16:04:48 +01:00 |
|
Chris Wright
|
c149382e3c
|
Add comments to ci
|
2021-03-17 12:16:47 +00:00 |
|
Chris Wright
|
67d98b9561
|
Add comments to ci
|
2021-03-17 11:28:56 +00:00 |
|
Chris Wright
|
fba94dcd8f
|
Switch to variable based command
|
2021-03-17 11:06:24 +00:00 |
|
Chris Wright
|
0511706888
|
Citemplate
|
2021-03-16 17:34:15 +00:00 |
|
Chris Wright
|
576e25306e
|
Update .gitlab-ci.yml
|
2021-03-16 15:37:31 +00:00 |
|
Chris Wright
|
d74cd3d048
|
Update .gitlab-ci.yml
|
2021-03-16 14:41:42 +00:00 |
|
Chris Wright
|
e829f60d95
|
Switch to ci template
|
2021-03-16 12:53:44 +00:00 |
|
Chris Wright
|
945de8ab93
|
Fix prerelease checks
|
2021-03-15 18:08:53 +00:00 |
|
Chris Wright
|
68cba9efc0
|
fix ci
|
2021-03-15 18:04:54 +00:00 |
|
Chris Wright
|
eea3040d74
|
fix ci
|
2021-03-15 17:36:22 +00:00 |
|
Chris Wright
|
5df27390f0
|
CI semicolons
|
2021-03-15 16:36:10 +00:00 |
|