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aertslab / SCENIC

SCENIC is an R package to infer Gene Regulatory Networks and cell types from single-cell RNA-seq data.
http://scenic.aertslab.org
GNU General Public License v3.0
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Access to actual motifs as opposed to motif-ID #17

Open AsafPoran opened 6 years ago

AsafPoran commented 6 years ago

Hello,

We've successfully run through the tutorial with our dataset and were able to detect interesting regulons. In our system, we would greatly benefit from examining the motif weight/probability matrices (in addition to their IDs or logos), as we would like to quantify CpG presence in those motifs. We see in the RcisTarget folder structure that the "raw" database (used to generate the logos) is currently unavailable, would you please provide it for any of the working versions, particularly v8?

Thanks a lot!

MartinCastagne commented 1 year ago

Hello, thank you for your fantastic work on SCENIC. I would also like to have access to the position weight matrices of the motifs corresponding to the version of the ranking file "hg19-tss-centered-10kb-7species.mc9nr.feather". The only PWMs available corresponds to the V10, with only few motifs overlapping with the precedent versions. Would it be possible to have access to these files ? Thanks a lot !