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When using the ``tree()`` function/method, currently arrays are printed with shape and dtype. This is useful diagnostic information but requires that the ``.zarray`` resource is retrieved and read for…
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Reads from lanes that have low q30 values should not be included to calculate sample reads,
So that only reads of good quality are used for running analyses.
# Acceptance Criteria
- [x] O…
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## Need
### TMB calculation today in BALSAMIC
The current definition is based on:
1. TMB was defined as the number of somatic, coding, base substitution, and indel mutations per megabase of genome …
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Since there are first proteomics pipelines in nf-core, it would be nice to make some parts of linting and especially the templates more generic.
Some things to consider:
- We do not need the igeno…
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This request was created from a contribution made by Duo Xie on August 20, 2022 16:16 UTC.
Link: [https://gatk.broadinstitute.org/hc/en-us/community/posts/8235601014427-Issue-when-running-BaseRecalib…
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The current wdl files were developed with DNANexus in mind. I am trying to modify and use in Cromwell, and it seems there are differences in the way paths for sub-workflows are handled vs. DNANexus. I…
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Things to check:
* [ ] What does stellar do with long repeat regions (i.e. a whole 1Mb sequence only containing "A")
* Does it have more than one Swift Verification?
* [ ] Have benchmarks and sim…
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Hello. Thank you all for building this publicly available database of genomic and related information. I’m attempting to use a number of scRNA-seq datasets published and uploaded to the SRA by differe…
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Hi!
I (plus collaborators) would like to contribute schema for the description of genomic data. I have [posted about this](https://lists.w3.org/Archives/Public/public-schemaorg/2015Aug/0000.html) on …
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@oxinabox [ 1:40pm]
So the task here, really is to make:
`generate(DataDryad(), "https://datadryad.org/resource/doi:10.5061/dryad.74699")`
return something like the string:
@oxinabox [1:47 PM]…