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HI !
in Callisto part I detected a print bug
```
Last login: Mon Jul 10 09:17:19 on ttys000
benjamin@macbook-pro-de-benjamin ~ % python3 /Users/benjamin/Dropbox\ \(U932\)/Salmon\ team/NGS/Lung…
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Is it possible to specify the `-x` option to allow for running paired-end data with the UMI on read 2, but no cell barcode? The strandedness would be `--rf-stranded` as well.
Reads look like:
Re…
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### Description of the bug
Hi @rannick
Single-end RNAseq libraries result in error with `PIZZLY_WORKFLOW:KALLISTO_QUANT`:
```
Error: paired-end mode requires an even number of input files
…
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### Description of feature
I want to adapt the pipeline for SMART-Seq2 as well. There exist a SMART-seq2 nf-core pipeline (https://github.com/nf-core/smartseq2), but it is outdated and the last commi…
heylf updated
2 years ago
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The same issue has been reported a few times and I was wondering if anyone has actually got this thing to work. It seems super useful so it would be nice to know if there is something we can do to hel…
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**Describe the issue**
Hi!
I met an error when I run `kb count` to generate a gene count matrix, the output `Error: Number of files (2) does not match number of input files required by technology BU…
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Hello,
I would like to know if trimming the reads (removing the adaptor and low quality bases/reads) previous to mapping with alevin-fry makes a difference or not, since I wasn't able to find any …
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Hi, I am getting different count outputs (overall, spliced and unspliced) depending on the versions of kb python used. For example if counts were calculated with the following command:
```
kb coun…
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## Is your feature request related to a problem? Please describe
`alevin-fry` is the successor of `alevin` and this pipeline should use the latest-greatest version!
@rob-p pointed out on slack t…
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Hi, I have freshly installed funannotate through conda, then removed augustus by using "conda remove --force-remove augustus". After that I locally installed augustus 3.3 through apt-get and redirecte…