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nextflow inspect does not work due to missing parameters
bug
Something isn't working
#347
opened Jul 26, 2024 by
stevekm
cellranger count => Your reference does not contain the expected files
bug
Something isn't working
#345
opened Jul 11, 2024 by
nick-youngblut
Implement sample demultiplexing followed by VDJ + feature barcode analysis per sample
enhancement
New feature or request
#343
opened Jun 28, 2024 by
herpov
cellranger_count.py: capture stderr and stdout
enhancement
New feature or request
quality & consistency
improve quality and reduce maintenance burden
#341
opened Jun 24, 2024 by
nick-youngblut
--cellranger_index
only appears to work if --validate_params false
provided
bug
#340
opened Jun 22, 2024 by
nick-youngblut
scrnaseq will not recognize my genome file path
bug
Something isn't working
#339
opened Jun 20, 2024 by
jjovelc
Trimming R1 fast files in all aligners
enhancement
New feature or request
#333
opened May 24, 2024 by
ChristopherMancuso
cellranger-multi implementation follow-up
enhancement
New feature or request
#332
opened May 23, 2024 by
fmalmeida
5 tasks
Running 'cellranger-arc count' with existing genome index
enhancement
New feature or request
#331
opened May 17, 2024 by
ashwinikumarkulkarni
Cellranger mkref resource flags incorrect
bug
Something isn't working
#329
opened May 13, 2024 by
RPSeaman
'star' in genome configrations ignored
bug
Something isn't working
#327
opened May 9, 2024 by
pinin4fjords
Sample merging does not work if files are named the same
bug
Something isn't working
bug-confirmed
#324
opened May 4, 2024 by
nick-youngblut
cellranger mkref with multiple species
enhancement
New feature or request
#319
opened Apr 16, 2024 by
MaestSi
cellranger_count.py: remove any existing output directory
enhancement
New feature or request
#315
opened Apr 9, 2024 by
nick-youngblut
allow use of .gz when specifying fast and gtf
enhancement
New feature or request
#313
opened Mar 20, 2024 by
ChristopherMancuso
Update to the latest simpleaf
enhancement
New feature or request
#312
opened Mar 5, 2024 by
DongzeHE
Clean up mtx conversion code
enhancement
New feature or request
quality & consistency
improve quality and reduce maintenance burden
#310
opened Mar 5, 2024 by
grst
When aligner is cellrangerarc the step MTX_TO_SEURAT failed
bug
Something isn't working
#299
opened Jan 31, 2024 by
wzheng0520
Utilize central modules for simpleaf workflow
enhancement
New feature or request
quality & consistency
improve quality and reduce maintenance burden
#296
opened Jan 23, 2024 by
apeltzer
Tests for cellranger-arc
enhancement
New feature or request
quality & consistency
improve quality and reduce maintenance burden
#290
opened Jan 18, 2024 by
grst
Update or remove universc
enhancement
New feature or request
quality & consistency
improve quality and reduce maintenance burden
#289
opened Jan 18, 2024 by
grst
Crash when specifying existing --star_index using star aligner
bug
Something isn't working
#277
opened Dec 15, 2023 by
ffmmulder
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