Haibo Liu

Could you add an option to trimming polyT from the 5'?

1

Hello, Could you add an option to trimming polyT from the 5'? I think it is useful for filtering polyT stretches coming from polyA tails in unstranded RNA-seq data. Thanks,...

I am trying to run the example code in the future.batchtools Git Hub README, as follows. But I failed due to error message shown below. Could you help me out?...

shifting ATAC-seq reads

1

Hello Wenbao, I think the shifting operation of the ATAC-seq read end in scATAC-pro is not correct. (https://github.com/wbaopaul/scATAC-pro/blob/master/scripts/src/simply_bam2frags.pl#L73-L76). The shifting should consider the strand of read mapping, for reads mapped...

how to run a scATAC-pro analysis with multiple biological replicates

8

Dear developers of scATAC-pro, I am not sure what are the steps to run a scATAC-pro-based analysis with up to 6 replicates, each of which has various of sequencing depth...

concatenated words

1

Line 2 of Chapter 4, Workflow: code style, "butitsuremakesthingseasiertoread" are concatenated without spaces.

Please help submit my CleanUpRNAseq package to Bioconductor

36

Update the following URL to point to the GitHub repository of the package you wish to submit to _Bioconductor_ - Repository: https://github.com/haibol2016/CleanUpRNAseq Confirm the following by editing each check box...