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The web tool has support for new kinds of interactions we'd like to include eventually:
The output of Garnet should be changed to indicate what genes were used to predict a TF was important (i.e. t…
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Hello,
Thank you for sharing this great tool for us to explore transposon in NGS data. Currently, I am using it to investigate TE in human RNAseq data. I enter a problem in the combine_hit…
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I did three tests with the following dataset (Aldh2.mRNA.fa, Aldh2.mRNA.test.fa, Aldh2.mRNA.test2.fa)
I got the same amino acid as a result. (The max score has changed, but it is equally positive sco…
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## Is your feature request related to a problem? Please describe
I think it would be good to have [SoupX](https://github.com/constantAmateur/SoupX) or a similar tool as part of the pipeline.
…
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How can we elucidate the ground truth for the mol_mrna from the dyngen object?
I am following the tutorial [here](
https://dyngen.dynverse.org/articles/getting_started.html#step-5-simulate-gold-st…
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as discussion in #210
>Genes as master entity and mRNAs as splice variants
Unpublishing mRNA, publishing gene, and migrating fields that were hard-coded for gene to mRNA will take care o…
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see MusSPRETEiJ_1411 scaffold10053:33,443-33,453
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This may be an issue with my BED file containing some duplicate regions as I used
```
$ bcftools filter --targets-file S04380110__Agilent_SureSelect_Human_All_Exon_V5/hg38/S04380110_Covered.bed -O …
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Dear Alexdobin,
I have a question associate with count reads for each gene using STAR. I download cerevisiae genome fasta and gtf files from UCSC. Since I have some interested ncRNA are not in the …
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### 📚 Describe the documentation issue
Hi there,
I'm using pyg for a link prediction problem in heterograph and used the official Doc. as well as your [post ](https://medium.com/@pytorch_geometric…