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I tried to align whole genome reads (hg19) generated from pbsim using GraphAligner.
However, the program crashed when building minimizer seeder from the graph.
This is the error message that I got:…
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Hi,
Thanks for the useful package you provided, I m trying to repeat your analysis on testdata so then I will use scFusion on my single cell RNA-seq ALL dataset to find fusion genes. I have an issu…
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### Description of the bug
The pipeline prematurely stops with the error:
`Missing process or function Channel.empty([[]])`
The log file says:
`Caused by: groovy.lang.MissingMethodException: N…
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### Description of the bug
I'm having some trouble getting the `test` data to run via `singularity` with `alevin`, specifically if I supply my own genome/annotation. It's failing at `SIMPLEAF_INDEX`
…
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Hi,
I wonder if anyone in this community can help me figure out the reason behind the discrepancy in counts. Please see below:
I am using HTSeq-count to generate counts from two different types …
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PEPATAC with looper failed with the latest looper and eido
here is the error message:
```Looper version: 1.4.0
Command: run
/home/bx2ur/.local/lib/python3.8/site-packages/divvy/compute.py:150…
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@alexdobin
Hi Alex,
One of my colleague asked me to help him to analyze RNA-Seq from plant genome. It is my first time to attempt to align plant genome using STAR. The genome is very small ab…
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Hi!
I am a big fan of parsnp. I was using v1.7.4 so I decided to update parsnp to v2.0.5. However, I get this error:
```
File "miniconda3/envs/parsnp2/bin/parsnp", line 969, in parse_input_files
…
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Hi there. I've been successfully running pepatac with preconfigured human and mouse genomes/indexes for a few weeks and recently had the need to process some atac-seq originating from chicken and cow.…
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Hi, I'm running prep_genome_lib.pl to build an index and am seeing the following error in the log:
```
-- Skipping CMD: cp ref_annot.cdsplus.dfam_masked.fa.allvsall.outfmt6.genesym.best.overlaps_f…