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@PritiShaw can you grab the MeSH terms for the PMIDs in this file?
https://reactome.org/download/current/ReactionPMIDS.txt
There are many duplicates, so make a unique list. To the same exercise…
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Hello developers,
Very cool tool and great paper.
I was wondering if this tool could be adapted for non-human samples (e.x. cattle)? Or was it specifically developed or trained with hg19 in mi…
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### Topic model (NLP)
### CNN for TF binding prediction
1. [2018-Nucleic Acids Research-DeFine: deep convolutional neural networks accurately quantify intensities of transcription factor-DNA bindi…
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"GO:0006351 transcription, DNA templated" and children should only used to annotate RNA polymerase and GTF.
Annotations need to be reviewed, and moved to the appropriate 'regulation' term.
Ann…
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Hi,
I try to analyze transcription factors and kinase family-related genes using the transcriptome data. I have the unigenes file in the fasta format. I am getting an error like this.
Error: Seque…
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Hi
First of all, thank you so much for this excellent tool and straightforward tutorials to follow.
I have one question. When I am trying `pyscenic ctx` CLI module with default parameters (which…
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Hi!
I am using VeTra to make a TI analysis on my dataset and just read the new version of the paper. I was wondering when will the GitHub be updated on how to identify the influential transcription …
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**Reported by kchris on 2010-06-12 00:00 UTC**
Hi,
There are some promoter motifs, e.g. the "A_box" that is part_of "RNApol_III_promoter_type_2" that are is_a children of "TF_binding_site", which is …
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Hi,
Thank you for this brilliant package. Using the PISCES method, I had generated 7 cell-type specific networks which I have then projected onto my single cell dataset to calculate the activity fo…
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Hello,
thanks for putting this tool together.
Could you please elaborate on what exactly the output files are and how one would need to filter them?
In contrast to the README I get two files, `…