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https://github.com/Reed-CompBio/spras/security/dependabot/1 reported a vulnerability in the version of NumPy used by Omics Integrator 1. However, we cannot update NumPy to the version that fixes this…
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Thanks and regards as ever to the devs.
I'm considering several sets of 'omic data generated from the same cohort of ```FASTQ``` files (i.e. taxonomic, pathways, etc). The way of the CoDa seems a …
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Hi, thank you very much for your valuable open source data.
I tried to use the metabolomics matrix provided in the article to reproduce the Sankey diagram of Figure E in F1. At first I took …
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Hi,
I have tried running inference.py on 363 complexes given on testset_csv.csv. But getting failed cases on CPU are 21 complexes (linalg.svd: The algorithm failed to converge because the input matr…
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### Description of the issue:
Richelle et al., in a recent [research article](https://www.sciencedirect.com/science/article/pii/S2667237521000850#!) suggested an approach for interpretation of omics …
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It was with great interest that I read your recent publication in Nature Methods titled "scGPT: toward building a foundation model for single-cell multi-omics using generative AI" . I found your work …
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Feature request: allow `$unset` commands in `/queries:run`.
User story:
I was trying to unset a value with `/queries:run` and I got an error. Instead I had to use `$set` with an empty list.
e…
aclum updated
3 months ago
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See https://www.biorxiv.org/content/10.1101/2021.07.28.454201v1 for kidney atlas data
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Sometimes saving Filter (with joining identifiers) fails on intersect omics page
Reproduce: Biomap Ada Instance> TREATgermany > Person > Click on Female in Sex column chart > Omics Search > select …
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- Load from file
- Preprocess as a whole, not per sample
- Make flexible for any omics type oriented a certain way
- Put into dictionary depending on what omics types are available (include binary …