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Hello, I am trying to analyze RRBS data from M. californianus and there is a published scaffold genome that I used in Bismark to get bam and bed files. I want to visualize these against the genome so …
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Hello,
Just trying to figure out how I could use omixer to detect the presence of GBMs in a particular species. If I was just looking to produce the coverage file could I load a table with the KOs pr…
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Hi pauline-ng,
I have a question about using reference genome to build my SIFT database.
I have two species (SP1 and SP2, for example). SP1 has a reference genome, while SP2 does not. SNP calling fo…
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**Snakemake version**
8.13
**Describe the bug**
I'm using the `slurm` executor plugin to have Snakemake submit jobs to cluster on my behalf. In addition to this, I'm also using the `fs` plugi…
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Hi im not sure if i built the reference genome ok
the slrum files told me its done
[IR_finder_venv] adi8897@moriah-gw-01:~/adi8897/IR_finder_venv/IRFinder-1.3.0/REF/Human-GRCh38-release110% cat slur…
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The following genomes did not download in Kalamari 5.3.3. I'm wondering if I need to replace these.
CP000927
CP000937
CP000949
CP000950
CP001010
NC_000907
NC_000915
NC_003454
NC_003888
NC_…
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### Description of feature
It is equal to percentage of reads mapped to the genome.
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### Description of the bug
Just a suggestion to maybe prune the `star` entries from the iGenomes config for this workflow, since they're not used for STARSolo? Maybe other irrelevant entries too, but…
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Sometimes one needs to analyze data that has been aligned against an old genome assembly. As far as I can see, there is no explicit direction in the documentation as to how the workflow should be modi…
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Hello, coverm is a good software and very helpful for my work. However, I'm not sure about the calculation process of the 'genome' module of CoverM. It is very easy to understand the calculation proce…