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We need parsers for the tools listed here (http://bit.ly/1jbRaxe) and think it is best to put it into scikit-bio. The reason is multi-fold:
1) the sequence and annotation will be represented as `Sequ…
RNAer updated
9 years ago
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I noticed that in `_topology_tools.py` the B matrix is size n1 (genes) by n2 (cells)
B = np.zeros((n1, n2))
https://github.com/zcang/scGeom/blob/addb2f6a194ba97f43692bb91fcb54926…
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### Description of feature
[ribodector](https://github.com/hzi-bifo/RiboDetector): Accurate and rapid RiboRNA sequences Detector based on deep learning.
To test whether Ribodector can effectively r…
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hi developer, thank you so much for your helpful tools.
I tried to use irGSEA to calculate the GO -BP geneset enrichment scores. But when I calculated the enrichment score as shown below:
`skin.GO.B…
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Hi, thanks in advance.
I have obtained multiple viral sequences identified by several tools, including vibrant. Now, i want to find AMGs. But it seems that vibrant could only annotate sequences ident…
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Hello,
I am doing single nuclei RNA seq and have issues with cellranger discarding lots of reads and would like to directly compare between optimizing the cellranger reference to deal with overlaps e…
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It would be nice to make it easier for people to know what should be referenced if they use a pipeline in a manuscript. For example, `nf-core references ` could return a list of the references that yo…
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This issue contains monthly updates to the ranked list of PubMed papers for curation. The full list can be found [here](https://github.com/tanayshah2/bioregistry/blob/5560dcf284f2c0309287e0a5a551e435e…
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Here is a simulated IGH sample (using simNGS):
[igh.fa.txt](https://github.com/mozack/vdjer/files/805783/igh.fa.txt) - simulated IGH transcripts
[r1.fastq.txt](https://github.com/mozack/vdjer/fi…
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At some point we should release this suite in the main toolshed, as a suite definition, and get artbio (me) as a owner for sustainable maintenance. This will be a first job for the IFB Engineer.