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nf-core
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mcmicro
An end-to-end processing pipeline that transforms multi-channel whole-slide images into single-cell data.
https://nf-co.re/mcmicro
MIT License
4
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12
forks
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Add Palom as a registration option
#44
kbestak
opened
1 day ago
0
Add MAPS as phenotyping module
#43
LukasHats
closed
1 day ago
0
Template update for nf-core/tools v2.14.1
#42
jmuhlich
closed
6 days ago
1
Template update for nf-core/tools v2.14.1
#41
jmuhlich
closed
6 days ago
2
Add a staging module for macsima data.
#40
VictorDidier
opened
1 week ago
0
Issue 25
#39
jmuhlich
opened
1 week ago
1
Consider --illumination manual vs. checking for the presence of the dfp/ffp samplesheet columns
#38
jmuhlich
opened
1 month ago
0
Borrow ideas for how to design "restart" feature from sarek
#37
jmuhlich
opened
1 month ago
0
Module parameters
#36
josenimo
opened
1 month ago
0
Issues running Exemplar001
#35
josenimo
opened
1 month ago
0
nf-validation isn't checking the files/directories in the samplesheets
#34
RobJY
opened
1 month ago
1
Important! Template update for nf-core/tools v2.14.1
#33
nf-core-bot
closed
6 days ago
0
Important! Template update for nf-core/tools v2.14.0
#32
nf-core-bot
closed
1 month ago
1
Mesmer in MacOS
#31
josenimo
opened
2 months ago
6
Design a mechanism to pass image pixel size to Mesmer and other tools
#30
jmuhlich
opened
2 months ago
5
Sample sheet update
#29
jmuhlich
closed
1 month ago
2
input_sample code path does not explicitly sort input image filenames
#28
jmuhlich
opened
2 months ago
1
basicpy output should be split up by sample ID
#27
jmuhlich
opened
2 months ago
1
Template update for nf-core/tools v2.13.1
#26
jmuhlich
closed
3 months ago
8
move custom validation to groovy
#25
RobJY
opened
3 months ago
4
SampleFileAggregation: Concatenating quantifications into a single csv
#24
josenimo
closed
3 months ago
0
updated code with changes for handling 1 row per sample per cycle and 1 row per sample samplesheets
#23
RobJY
closed
2 months ago
6
Allow any non-empty string for marker_name and filter in schema_marker
#22
RobJY
closed
3 months ago
1
add darkfield correction flag to default basicpy args
#21
jmuhlich
opened
3 months ago
0
Set up test profile
#20
jmuhlich
closed
3 months ago
5
Change outdir subdirectory names to module names
#19
jmuhlich
closed
3 months ago
2
workflow runs when outdir parameter is missing
#18
RobJY
closed
3 months ago
3
Should markers.csv have a per-cycle channel number?
#17
jmuhlich
opened
3 months ago
0
Params that are paths aren't coerced to File objects by nf-validation if the value is a bare filename without a path component
#16
jmuhlich
closed
3 months ago
2
Important! Template update for nf-core/tools v2.13.1
#15
nf-core-bot
closed
3 months ago
2
Important! Template update for nf-core/tools v2.13
#14
nf-core-bot
closed
4 months ago
0
Important! Template update for nf-core/tools v2.12
#13
nf-core-bot
closed
4 months ago
1
Template update for nf-core/tools v2.11.1
#12
jmuhlich
closed
5 months ago
2
Resolving conflicts in nf-tools automated PR.
#11
jmuhlich
closed
5 months ago
1
Important! Template update for nf-core/tools v2.11.1
#10
nf-core-bot
closed
5 months ago
1
Important! Template update for nf-core/tools v2.11
#9
nf-core-bot
closed
6 months ago
1
Use pretty Markdown warning in README.md
#8
adamjtaylor
closed
7 months ago
2
Change sample sheet format to 1 row per cycle per channel
#7
RobJY
closed
7 months ago
1
read images and markers.csv from SampleSheet.csv
#6
VictorDidier
opened
8 months ago
0
Hardcoded test for ashlar, mesmer, mcquant.
#5
FloWuenne
closed
9 months ago
1
Important! Template update for nf-core/tools v2.10
#4
nf-core-bot
closed
9 months ago
2
Updated README info.
#3
FloWuenne
closed
10 months ago
1
Fill mcmirco with life
#2
heylf
closed
9 months ago
3
Important! Template update for nf-core/tools v2.9
#1
nf-core-bot
closed
11 months ago
0