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Hi,
I ran kb count on my data which is 10Xv3.I had a similar error with issue 19(https://github.com/pachterlab/kallistobustools/issues/19)
I'm sure my data should be 10XV3.Even if I changed the para…
XYZuo updated
3 years ago
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Hi,
I am trying to follow the RNA velocity tutorial and using kb-python, after generating the index file, the following command throws an error.
I noticed that during the index generation I got a wa…
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Hi,
I am trying to follow the RNA velocity tutorial and using kb-python, after downloading the index file, the following command ends with an error
```
time kb count --h5ad -i index.idx -g transcri…
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I am curious about how the flank parameter (number of flanking exon nucleotides) on each side of the intron is chosen for the intron fasta file. In kb_python/fasta.py generate_intron_fasta(), 30 nt is…
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Hi all,
Kallisto|Bustools is our go-to for anything related to single-cell RNA seq processing. We are into a new problem though and that is with total, single-cell RNA-seq that we would love to be …
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Dear kallisto team,
**Describe the issue**
I want to process a sample with several SRRs (for example, [this](https://www.ncbi.nlm.nih.gov/sra/SRX8769798) one) using pipes.
The bash [syntax](http…
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I'm getting further with getting toil-rnaseq to run, but it's still not going all the way. Now I seem to be dying with `OSError: [Errno 2] No such file or directory: '/data/work/toil-59fec6ca-1a65-4a…
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Hi,
I made an index using the recent posted solution for the mouse index (with Kallisto), but when try to run loom fromfq on my fastq files, it get this error:
```
2020-11-24 18:53:33,384 - INFO …
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I run the prediction step after a training step using rna seq data
the command as below:
funannotate predict -i data/foa_M13_clean-noMIT.fa.masked -o fun/ -s "Genus species" --strain "X44" --cp…
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I've successfully run 31 samples, but the last one crashes. Can you tell me what's wrong? All samples have been treated the same way.
name = 'sc_hla_count'
operating_system = 'unix:Ubuntu'
crate_…