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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
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Crop overview multiqc
#36
kbestak
closed
10 months ago
3
Local module revamp
#35
kbestak
closed
10 months ago
3
Reduce image size for local modules.
#34
kbestak
closed
10 months ago
1
maskfilter added, molkartqc update, prefix fix, versions
#33
kbestak
closed
10 months ago
1
Replaced local mindagap/duplicatefinder with nf-core module.
#32
FloWuenne
closed
10 months ago
1
CLAHE changes
#31
kbestak
closed
10 months ago
1
Mindagap outputs
#30
kbestak
closed
11 months ago
2
If create training subset is run, pass crop overview to MultiQC.
#29
kbestak
closed
10 months ago
1
Molcart_QC --> Molkart_QC
#28
kbestak
closed
10 months ago
1
Clahe optimization
#27
kbestak
closed
10 months ago
2
Add anndata container as an output format
#26
FloWuenne
closed
9 months ago
1
Added nf-test for pipeline main.nf
#25
kbestak
closed
11 months ago
1
Documentation update
#24
kbestak
closed
10 months ago
1
Added HOME mounting for mesmer singularity.
#23
FloWuenne
closed
11 months ago
2
Mesmer does not require stack
#22
kbestak
closed
11 months ago
0
Mindagap - multiple samples with same input name
#21
kbestak
closed
11 months ago
0
Cellpose fix - custom model and multiple samples
#20
kbestak
closed
11 months ago
3
Documentation
#19
kbestak
closed
11 months ago
3
Added tilesize parameter for mindagap and mindagap_duplicatefinder
#18
kbestak
closed
1 year ago
2
Additional parameters for Mindagap_mindagap and Mindagap_duplicatefinder
#17
kbestak
closed
1 year ago
2
Add tag to project_spots container / spot2cell container
#16
kbestak
closed
10 months ago
2
Replacing PROJECT_SPOTS and MCQUANT by more optimized method
#15
FloWuenne
closed
1 year ago
4
Replaced clahe param with the skip_clahe param
#14
kbestak
closed
1 year ago
2
Replace clahe parameter to skip_clahe so that the default is set to False, not True
#13
kbestak
closed
1 year ago
1
Add testing using nf-test
#12
FloWuenne
closed
9 months ago
4
Replace project spots and mcquant with faster method
#11
FloWuenne
closed
1 year ago
1
Initial MultiQC parsing
#10
kbestak
closed
1 year ago
2
Add QC parsing with MultiQC
#9
kbestak
closed
1 year ago
2
Add option to filter masks and exclude mean intensities
#8
kbestak
closed
10 months ago
7
#molkart QC parsing with MultiQC
#7
kbestak
closed
1 year ago
0
Add ilastik pixel classifier and multicut as segmentation options
#6
kbestak
closed
1 year ago
1
Documentation update: add documentation
#5
kbestak
closed
11 months ago
1
Initial setup
#4
kbestak
closed
1 year ago
1
Important! Template update for nf-core/tools v2.10
#3
nf-core-bot
closed
1 year ago
2
First minimal working version of pipeline
#2
FloWuenne
closed
1 year ago
2
Important! Template update for nf-core/tools v2.9
#1
nf-core-bot
closed
1 year ago
0
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