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Hi,
I am runnung HicPCA to analyze compartment analysis. Would you have any good suggestions to choose the coorect PC for each HiC?
Thanks in advance.
Best,
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Update the following URL to point to the GitHub repository of
the package you wish to submit to _Bioconductor_
- Repository: https://github.com/databio/COCOA
Confirm the following by editing ea…
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Hi, I am trying use lisa to my own ATAC samples. Now I have a N*m matrix and a input gene list, which N represent N ATAC peak region and M reprsent M samples.
I am wordeing whether I can apply lisa …
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While working on the transcription guidelines paper we have noticed some inconsistencies with the refactored transcription regulator definitions and subclasses.
@colinlog @RLovering and I have mad…
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I've tried sorting my bed file in many different ways . Does anyone have any insight on this problem?
Traceback (most recent call last):
File "chromatin_prior_motif_score2kb.py", line 179, in
…
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Hello! Thank you for this awesome tool! In particular, I would love to be able to simulate changes in a scRNAseq data set after a single transcription factor of interest is perturbed.
From the tut…
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Update the following URL to point to the GitHub repository of
the package you wish to submit to _Bioconductor_
- Repository: https://github.com/Bioconductor/HMMRATAC
Confirm the following by ed…
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Hi there!
I am working on a pipeline wrapper for this repository at https://github.com/neekonsu/alphabet in order to facilitate the use of this analytical tool. I am currently running into some err…
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Hi all,
The sequencing depth of single cells would be an important factor that may hinder true discovers like cell type identification, pseudo-time paths calculation etc. As far as I know, many scA…
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The following script crashes:
./regionCounts.sh -RawDataFile ../../Harbour/SamFiles/ -Partitions ../../Harbour/partition.list -Output ../../Harbour/ChIP_TrainingMatrix
./regionCounts.sh: line 2…