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Hi,
I am running a nextflow pipeline and rMATS is part of the pipeline. All the steps run well except the rMATS step. How should I overcome this errror? See the attached log below for reference.
[…
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Hi Geo,
I have nanopore cDNA data aligned with minimap2 (with --cs --MD). I tried abundance estimation with StringTie v1.3.5 that should recognize the "CS" tag as an alternative to "XS". The splice…
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Datashader supports shading multiple attributes of each pixel in different colours. I wonder if we could shade num_inheritors as another dimension? Might take some fiddling, but the examples here look…
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## Feature request
### Tool(s) or class(es) involved
This is a request for a new tool
`GencodeRegionsAsBED`
### Description
Given a GENCODE gtf, create a BED file with the region of the genes…
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Hello,
After running the ORFQuant pipeline and looking at the candidate ORFs in the gtf file, it looks like ORFs with exons overlapped with an adjacent cds region are being merged together resultin…
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### Is there an existing issue for this?
- [X] I have searched the existing issues
### Have you loaded the SQANTI3.env conda environment?
- [X] I have loaded the SQANTI3.env conda environment
### …
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* Move grid back onto variants page as a click to toggle (this was done mostly as a performance enhancement but I guess if we only trigger load on show we can get the same effect)
* On Variant details…
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Hello,
I have been playing around with the rvtests docker container for a couple of days and things have been running smoothly, thanks for the nice utility!
Yesterday I attempted using a VCF fil…
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Dear author:
I want to use tss_tts.tajima() and tss_tts.variants.plot() to show the population in the TTS and TSS region, but an error occurs when running tss_tts.tajima(), prompting
Error in (BIN…
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- [ ] Align the data as necessary for circtools:DCC, using the genome index:
```
/reference/Rattus_norvegicus/Ensembl/Rnor_6.0/Sequence/STARIndex/
```
and the de-novo assembled gene annotation:
`…
plger updated
5 years ago