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**Describe the bug**
Flowing the instructions, I chose the --keep-up 1 to callpeak with macs2 for bacterial ChIP-Seq data. But, it reported "Too few paired peaks So I can not build the model! ...". T…
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## Template Fixes:
## Specification Changes:
| Field | Change |
| --- | --- |
| `sequencing_assay_type` | New field |
| `host (common name)` | New picklist IDs |
| `host (scientific name)`…
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Note to users:
*tximeta* is updated with the Bioconductor release cycle (every 6 months). Older, non-release versions of *tximeta* cannot be modified (there are frozen once the release/devel cycle …
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### Background
Gene regulatory networks (GRNs), which delineate the interactions between transcription factors (TFs) and their target genes, represent the mechanisms governing cell differentiation an…
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The sequencing process can occasionally give duplicates, where one fragment gets sequenced twice. These aren't independent observations, and it's common for people to remove duplicates before process…
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Hello to all,
I have a question about salmon and more precisely the alignment part.
I use salmon on BAM files of RNAseq data and the problem is that I don't really know what to use as .
I used …
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Hi,
I am using CellChat-V2 for the analysis of stereo-seq (cell-bin) data. Could you provide guidance on how to estimate the 'spot.diameter' and 'spot' parameters within 'scale.factors', as these a…
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Hi
This problem is very similar to [Issue 961](https://github.com/benjjneb/dada2/issues/691).
The sequencing is from a big Novaseq run of the protein coding gene rpoB so I do have 400,000 unique…
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# dada2 pipeline for metabarcoding (CO1)
Thanks a lot for your dada2 pipeline, this is really cool. Our research group has been using it for our human microbiome projects. This is really cool.
We …