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Hello
I am looking for advices for the best way to clean up microbiome sequencing data that have been contaminated by Mock community (Zymo) controls. I know how many cells to retrieve per species per…
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# Bug Report
### Affected tool(s) or class(es)
PathSeq
### Affected version(s)
- 4.1.6.0
### Description
I wanted to better understand the PathSeq pipeline (and in particular, the Host…
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Are other normalizations acceptable as input for the shiny app, besides RPKM? namely TPMs.
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### Description of the bug
Viralrecon has worked perfectly for our SCV2 and some hybrid capture protocols (with the metagenomic side). However, when I ran the pipeline by passing a custom bed file an…
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Hi,
First of all, thanks for making STARSolo.
Is there any way to get HDF5 as output from STARSolo pipeline after mapping/counting 10x droplet data?
Or any other way to get each individual tran…
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Based on the messy-as-heck workflow sketched out in #356, we want to do a number of partial workflows, with specific stopping and restarting points. The workflow I initially had in mind would require …
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Hi, I'm doing the differential loops analysis by `Imp_Scripts/DiffAnalysisHiChIP.r` And It went error after I just switched the positions of the input files in my execution script.
```{shell}
Rscri…
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Adding support wouldn't be so difficult.
Once a random access thread reach a block marked as the last block of a gzip part it could parse the footer and the header of the next part and start a clas…
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Hello!
We're testing PhylogicNDT on multi-sample sequencing data, and looking to better understand cluster CCF. In this run (see below), cluster 2 is descendent from cluster 1. However, samples T0,…
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This works but
```python
for guppy in guppy_versions:
print(guppy)
my_out = f'output/010_basecall/{guppy}/sequencing_summary.txt'
my_outdir = f'output/010_basecall/{guppy}'
my_…