imcyto

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Version `2.14.1` of [nf-core/tools](https://github.com/nf-core/tools) has just been released with updates to the nf-core template. This automated pull-request attempts to apply the relevant updates to this pipeline. Please make sure to...

nf-core-bot

run_imctools.py metal names are expected to be unique, and have issues if the Channel names are protein listed

1

So this issue is posted on the slack and this is a cross reference [slack](https://nfcore.slack.com/archives/CMGFHQHDW/p1658359479873989?thread_ts=1658257632.312509&cid=CMGFHQHDW) The inputs required are a panel.csv with a column for metals that the script run_imctools.py...

arcolombo

executor > local (4) executor > local (5) executor > local (5) [bc/96dcc6] process > IMCTOOLS (20191121_BRAC3438.6f) [100%] 1 of 1 ✔ executor > local (6) [bc/96dcc6] process > IMCTOOLS...

sailseem

I try to use the tool with the test case but I got the following error (which refers to the `20191121_BRAC3438.6f.mcd`) ``` >>> nextflow run nf-core/imcyto -profile test,docker N E...

DavidSriker

hi guys, I’m running into a problem with imcyto where if I run the `segmentation.cppipe` by itself in CellProfiler using tiffs from one of the ROIs, it works well (...

SBata