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Please post discussion of LDA project here.
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Hi.
Would it be possible to have the Sequence Ontology terms in NOCTUA, so we could use them in the models?
Thanks,
Jesualdo
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This is a proposal for a new term "Manual motif inference based on multiple sequence alignment" as used in the CollecTF database (www.collectf.org). Manual motif inference based on multiple sequence a…
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After I run java -Xmx10G -jar ~/opt/gem.v3.4/gem.jar KSM --fasta test.pk.fa --g ~/opt/gem.v3.4/hg19.chrom.sizes --ksm test.ksm.lst --out test.pk.gemscan
I got "test.pk.gemscan.motifInstances.txt", …
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In the redocking step, I encounter an error message that says "Minimization failed after 100 attempts." Can the author provide a solution?
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The MotifFeatures.gff file has been renamed for Ensembl version 89.
We should update to Ensembl 90 as this will fix this and another problem.
However, they have split this file into chromosomes for…
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When running ananse binding with a region file with regions of only 1bp length, the error is not very descriptive:
2021-06-14 16:45:02 | DEBUG | Using default motif file
2021-06-14 16:45:44 | DEBU…
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https://doi.org/10.1371/journal.pcbi.1005836 (preprint https://doi.org/10.1101/105957)
> New architectures of multilayer artificial neural networks and new methods for training them are rapidly rev…
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Running ananse network on the develop branch, on cn106. It seems the memory limit causes the workers to stop, rather than behave?
command:
```
nice -n 10 \
ananse network -g GRCz11.fa -a GRCz11.…
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Hi,
I have binding sites of RNA binding proteins (RBP) analyzed from CLIP-seq data, so I want to do the motif enrichment and RBP-regulon prediction, which's used as input for SCENIC. How can I do t…