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38 Open 103 Closed
38 Open 103 Closed
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Issues list

Trimming R1 fast files in all aligners enhancement New feature or request
#333 opened May 24, 2024 by ChristopherMancuso
1
cellranger-multi implementation follow-up enhancement New feature or request
#332 opened May 23, 2024 by fmalmeida
Running 'cellranger-arc count' with existing genome index enhancement New feature or request
#331 opened May 17, 2024 by ashwinikumarkulkarni
Error with CONCAT_H5AD bug Something isn't working
#330 opened May 17, 2024 by ashwinikumarkulkarni
2
Cellranger mkref resource flags incorrect bug Something isn't working
#329 opened May 13, 2024 by RPSeaman
1
'star' in genome configrations ignored bug Something isn't working
#327 opened May 9, 2024 by pinin4fjords
1
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
3
allow use of .gz when specifying fast and gtf enhancement New feature or request
#313 opened Mar 20, 2024 by ChristopherMancuso
1
4
Update to the latest simpleaf enhancement New feature or request
#312 opened Mar 5, 2024 by DongzeHE
3
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
@heylf
3
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
1
MuData conversion enhancement New feature or request
#292 opened Jan 22, 2024 by grst
@heylf
Tests for cellranger-arc enhancement New feature or request quality & consistency improve quality and reduce maintenance burden
#290 opened Jan 18, 2024 by grst
@heylf
1
Update or remove universc enhancement New feature or request quality & consistency improve quality and reduce maintenance burden
#289 opened Jan 18, 2024 by grst
8
Crash when specifying existing --star_index using star aligner bug Something isn't working
#277 opened Dec 15, 2023 by ffmmulder
6
Multi-omics support (meta-issue) enhancement New feature or request
#272 opened Oct 26, 2023 by grst
1 of 3 tasks
3
Switch to use central nf-core modules enhancement New feature or request quality & consistency improve quality and reduce maintenance burden
#264 opened Sep 6, 2023 by pinin4fjords
Error at SIMPLEAF_INDEX for user supplied genome/annotation bug Something isn't working
#253 opened Jul 19, 2023 by jeremymsimon
Option to skip postprocessing enhancement New feature or request
#235 opened Jun 8, 2023 by zvittorio
2
Universc "essential container in task exited" bug Something isn't working
#230 opened Jun 2, 2023 by adamrtalbot
2
Support additional sequencing platforms through seqspec enhancement New feature or request
#212 opened Mar 23, 2023 by grst
STARsolo Workflow Doesn't Output Solo.out counts bug Something isn't working
#187 opened Dec 8, 2022 by sean-at-tessera
2
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