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Hi,
I am currently answering reviewers' comments on our paper https://www.biorxiv.org/content/10.1101/2021.02.16.431334v3.
In this study we used chromVAR to score the enrichment of transposable element subfamilies (instead of motifs) in bulk ATAC-seq data. To answer one of the reviewers' comments I need to assess and provide the number of elements overlapping accessible chromatin in my samples and those overlapping the background files. Is there a way to save the background files as bedfiles or to convert the indexes obtained using getBackgroundPeaks to actual genomic locations?
Many thanks in advance!
Giacomo
The text was updated successfully, but these errors were encountered:
Hi,
I am currently answering reviewers' comments on our paper https://www.biorxiv.org/content/10.1101/2021.02.16.431334v3.
In this study we used chromVAR to score the enrichment of transposable element subfamilies (instead of motifs) in bulk ATAC-seq data. To answer one of the reviewers' comments I need to assess and provide the number of elements overlapping accessible chromatin in my samples and those overlapping the background files. Is there a way to save the background files as bedfiles or to convert the indexes obtained using getBackgroundPeaks to actual genomic locations?
Many thanks in advance!
Giacomo
The text was updated successfully, but these errors were encountered: