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I ran the RNA-seq pipeline on 360 samples, and the slurm submission of multiQC failed with `Pathname of a file, directory or other parameter too long`
```
ERROR ~ Error executing process > 'multiq…
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Hi there
I am trying to add the busco/compleasm step to my pipeline as adding rnaseq data appears to be making my output too conservative
I am using a conda environment with braker v3.0.8 and givi…
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I'm working on this and would like to incorporate some feedback about decision-making from one of the end-of-course surveys. Here's what it said:
_I think it would be incredibly useful if you could…
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Pull uri directly from pubDir/outDir (configurable), and validate based on output (rather than vice versa)
1. Get Params
2. Find single output URI
3. List of valid keys, in order
4. Can override via …
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Hi,
I am trying to run CellChat on a single nuclei RNAseq dataset from the turquoise killifish. I basically followed the steps given in the [previous version of CellChat,](https://github.com/sqjin/…
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Hello, do I have to choose which datasets to include, or could I use them all? I am running an analysis on Chelonia Mydas.
The lineage is
```
Lineage( full )
cellular organisms; Eukaryota; Opi…
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I am summarizing my experince with digital normalization in reference based RNAseq analysis and possible future directions. I went through 3 use cases:
1. Diginorm for a group of samples in one experi…
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read_json almost never work for me. Here is for instance a json that is totally valid but breaks read_json
```
{
"id" : "GSM1698568",
"gse" : [
"GSE69360"
],
"title" : "Biochain_Adu…
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Since the mapping pipeline was split into mapping and bamstats, as far as I can tell no pipeline now reports very basic statistics about mapped files, such as % mapping rate , % spliced reads etc.
…
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Hello,
I have built portcullis from source using python version 3.7.2 (installed in a non-default location and available via "module load python/3.7.2"). When running rule_filter.py either at the "ma…