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Might be useful
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> @mtxellrb A script for creating a track database from bigWig TF ChIP-seq data is now added :`create_cistarget_track_databases.py`
>
> https://github.com/aertslab/create_cisTarget_da…
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I have a few TFs that appear to be missing from the TF list seen in this file: hs_hgnc_tfs.txt, which is available in the resources folder. The TFs are:
ZFHX4
AEBP1
CXXC5
TSHZ2
They are also mi…
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Hello,
I am working on TBI in killifish using bioinformatics approach.
I want to investigate killifish clusters and it’s subclusters as it is not very well studied. I want to discover the cell typ…
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RSAT `position-analysis` detects k-mers that present any type of positional heterogeneity by running, for each k-mer, a chi-squared homogeneity test on its profile of counts per positional windows com…
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In my analysis I am interested in obtaining (1) methylation motifs, (2) (non)methylated occurrences of those motifs at the read level. The output of nanomotif seems highly relevant for this, but is at…
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Hello, I have a huge graph i want to calculate motifs from but for years i have been struggling to find a scalable library to calculate motifs. How does dotmotif scale ? Is there a Big O complexity an…
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Hello,
I am following [this](https://morris-lab.github.io/CellOracle.documentation/notebooks/02_motif_scan/02_atac_peaks_to_TFinfo_with_celloracle_20200801.html) tutorial to obtain a base GRN, with…
acv21 updated
11 months ago
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Some data types associate a score to each sequence. This is for example the case for PBM, CSH, ...
We could
- sort the sequences by scores,
- run motif discovery (in particular `oligo-analysis`…
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Before diving into pose estimation metrics, it would be wise to:
a. QC our current behavioral measures (pupil, running, and licking)
b. Perform descriptive analysis to visualize our these metrics chan…