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nf-core
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molkart
A pipeline for processing Molecular Cartography data from Resolve Bioscience (combinatorial FISH)
https://nf-co.re/molkart
MIT License
10
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Segmentation with Proseg
#85
kbestak
opened
2 hours ago
1
Important! Template update for nf-core/tools v3.0.2
#84
nf-core-bot
opened
2 weeks ago
0
Important! Template update for nf-core/tools v3.0.1
#83
nf-core-bot
closed
2 weeks ago
1
Important! Template update for nf-core/tools v3.0.0
#82
nf-core-bot
closed
2 weeks ago
1
Stardist
#81
kbestak
opened
4 weeks ago
1
Segmentation with Stardist
#80
kbestak
opened
1 month ago
1
Add methods description in report
#79
kbestak
opened
1 month ago
0
Mindagap skip
#78
kbestak
closed
1 month ago
1
Fully move to nf-test
#77
kbestak
opened
1 month ago
0
Fixed multiqc report
#76
kbestak
closed
1 month ago
2
Multiqc report fix
#75
kbestak
closed
1 month ago
2
Make Mindagap optional
#74
kbestak
closed
3 weeks ago
0
Optimize parameters for full test data
#73
kbestak
opened
4 months ago
0
MultiQC custom output
#72
kbestak
closed
1 month ago
0
Merging template updates
#71
kbestak
closed
4 months ago
3
nf-core/molkart template update 2.14.1
#70
kbestak
closed
4 months ago
0
Issue: Unable to run Ilastik with different image sizes.
#69
giacuong171
opened
4 months ago
0
Fix create training set module to not create overlapping crops
#68
FloWuenne
opened
5 months ago
0
Benchmark & Improve Cellpose performance
#67
FloWuenne
opened
5 months ago
0
Update training image counts to start at 1 instead of 0
#66
FloWuenne
opened
5 months ago
0
Important! Template update for nf-core/tools v2.14.1
#65
nf-core-bot
closed
4 months ago
0
Important! Template update for nf-core/tools v2.14.0
#64
nf-core-bot
closed
5 months ago
1
Create training subset - uncouple hdf5 / tiff cropping
#63
kbestak
opened
7 months ago
0
Template update for nf-core/tools v2.13.1 in Molkart
#62
kbestak
closed
4 months ago
0
Unable to install cellpose with apptainer on HPC
#61
giacuong171
closed
4 months ago
4
Important! Template update for nf-core/tools v2.13.1
#60
nf-core-bot
closed
5 months ago
1
Replace Zenodo DOI with a general one (accidentally used the one only for 1.0.0)
#59
kbestak
closed
4 months ago
0
Sync dev to master
#58
kbestak
closed
8 months ago
2
Important! Template update for nf-core/tools v2.13
#57
nf-core-bot
closed
7 months ago
1
Deepcell_mesmer doesn't work on AWS with WAVE and FUSION
#56
FloWuenne
closed
4 months ago
4
Important! Template update for nf-core/tools v2.12
#55
nf-core-bot
closed
8 months ago
1
PR for first release
#54
kbestak
closed
8 months ago
2
updated mesmer to exlude leftover todo
#53
kbestak
closed
9 months ago
1
Module update + CI
#52
kbestak
closed
9 months ago
3
Molkartqc hotfix
#51
FloWuenne
closed
9 months ago
1
Molkart local fix
#50
FloWuenne
closed
9 months ago
1
Added anndata as an output format
#49
FloWuenne
closed
9 months ago
1
Template update for nf-core/tools version 2.11.1
#48
kbestak
closed
9 months ago
1
Merge template update for nf-core/tools v2.11
#47
kbestak
closed
9 months ago
0
Important! Template update for nf-core/tools v2.11
#46
nf-core-bot
closed
9 months ago
0
Fixed bug in Maskfilter config.
#45
FloWuenne
closed
10 months ago
1
Process resources
#44
FloWuenne
closed
9 months ago
1
Mesmer randomly fails on HPC using singularity due to model loading
#43
FloWuenne
closed
9 months ago
1
Clahe prefix fix
#42
FloWuenne
closed
10 months ago
1
Go over remaining TODOs
#41
kbestak
closed
9 months ago
0
Speedup mask filter.
#40
FloWuenne
closed
10 months ago
3
Added full test config file.
#39
FloWuenne
closed
10 months ago
1
Maskfilter too slow
#38
kbestak
closed
10 months ago
1
Update tower.yml to include all qc metrics
#37
kbestak
closed
8 months ago
2
Crop overview multiqc
#36
kbestak
closed
10 months ago
3
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