wgbs_tools
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nloyfer
tools for working with Bisulfite Sequencing data while preserving reads intrinsic dependencies
Dear Netanel, We are trying to get your software into Bioconda. However, we encountered an issue: the last release, version 0.2.2, is from July of last year, while the current...
Hi, great tool! Is for this tool a galaxy integration available? Thanks and best, Joachim
Hi, wgbstools is very convenient for processing DNA methylation data. I would like to confirm: When using bam2pat, does it merge the methylation status of CpG sites for both the...
Hi, Thanks for providing this tool, it is very useful. I have been testing it on nanopore data and noticed a potential issue in the modbam parser. In the current...
Hi, I have two problems concerning saving the plots. The first one is outcome of pat_fig. It is great that I can get all the samples on 1 plot, however,...
What does the (+) mean for each CpG site in that output, and if it's +one or 1 CpG, wouldn't the dots underneath correspond to the base level, but not...
I encountered an issue while trying to define the cell type-specific markers, as defined in the Nature paper (Loyfer, N., Magenheim, J., Peretz, A. et al. A DNA methylation atlas...
$ wgbstools vis -r chr4:83821889-83841122 GSE186458_RAW/GSM5652221_Oligodendrocytes-Z0000042L.pat.gz Invalid input argument Invalid reference path: /hdfs3/data/biodata/wgbs_tools/references/hg19/CpG.bed.gz
