ebi-gene-expression-group scxa-workflows issues

ebi-gene-expression-group / scxa-workflows

Higher level repo for aggregating all of Atlas workflow logic for Single Cell

Apache License 2.0

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issues

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Change SCXA_WORK path to win more disk space

#37 pmb59 closed 3 months ago
1
SLURM migration for SCXA-workflows

#36 pmb59 opened 4 months ago
0
Update droplet quantification submodule

#35 irisdianauy closed 5 months ago
0
Update quantification submodules

#34 irisdianauy closed 6 months ago
0
Availability of h5ad files

#33 dosumis opened 1 year ago
0
Documentation about the h5ad object missing

#32 Hannah-Doerpholz opened 1 year ago
0
WIP: Add alevin_fry

#31 nadjano opened 2 years ago
0
cannot open h5ad

#30 SilasK opened 2 years ago
1
Different sizes of collections feed at find_markers make the Galaxy workflow scheduler to fail

#29 pcm32 opened 2 years ago
0
Improve cell_type_field annotation

#28 pcm32 closed 2 years ago
3
Feature/add cts workflows

#27 a-solovyev12 closed 3 years ago
0
SCXA analysis workflow updates 2021

#26 pinin4fjords closed 2 years ago
3
Switch child workflows to use pre-defined indices, use gene metadata table for tertiary

#25 pinin4fjords closed 3 years ago
0
Feature/improved matrix handling

#24 pinin4fjords closed 3 years ago
1
Add failure filter to embeddings, update join tool

#23 pinin4fjords closed 3 years ago
1
Add symbol to MTX genes file before reading

#22 pinin4fjords closed 3 years ago
3
Feature/marker groupby from file

#21 pinin4fjords closed 3 years ago
1
Feature/batch adjustment

#20 pinin4fjords closed 4 years ago
2
Feature/parameterise celltype field

#19 pinin4fjords closed 4 years ago
1
Remove software dependency handling, remove historical artifacts

#18 pinin4fjords closed 4 years ago
1
Multi-parameter umap

#17 pinin4fjords closed 4 years ago
1
SCXA Workflows used for April/May 2020 release

#16 pcm32 closed 4 years ago
1
Feature/cell type differential

#15 pinin4fjords closed 4 years ago
1
Use version of droplet workflow with updated downloader specification

#14 pinin4fjords closed 4 years ago
0
[WIP] Feature/update for new scanpy scripts

#13 pinin4fjords closed 4 years ago
1
Handle deletion timeout galaxy

#12 pcm32 closed 5 years ago
1
Explain how to use humancellatlas.use-galaxy.eu

#11 pcm32 closed 5 years ago
0
Feature/tweak parameters2

#10 pinin4fjords closed 5 years ago
1
Update parameters files for changes

#9 pinin4fjords closed 5 years ago
2
Feature/test paused jobs handling

#8 pinin4fjords closed 5 years ago
1
Remove upper limit on droplet umi counts

#7 pinin4fjords closed 5 years ago
0
Make -k for keeping histories on Galaxy a configurable option

#6 pcm32 opened 5 years ago
0
Breakup smartseq and droplet clustering; adds parameters agreed

#5 pcm32 closed 5 years ago
4
Only move versions file for tpm filtering if that part is executed

#4 pcm32 closed 5 years ago
1
Add the various Nextflow workflows as submodules

#3 pinin4fjords closed 5 years ago
2
smartseq clustering

#2 pcm32 closed 5 years ago
2
Add submission script

#1 pinin4fjords closed 5 years ago
4