Chuan Zhi Foo

Unmapped reads

1

Hi, I'm trying to run Bowtie2 on paired-end ATAC-Seq data. Is there any way to write the unmapped reads into the output BAM file with both mates kept? My understanding...

Q: Error when running

2

Dear Sir/Madam, When I tried to run HMMRATAC, I got this error message: Exception in thread "main" net.sf.samtools.SAMFormatException: SAM validation error: ERROR: Record 1, Read name NS500138:357:HG7KCBGXB:3:23404:16812:5744, RG ID on...

Hi there. I was trying to create a HOCOMOCO database of only the mouse binding motifs. Where can I get the metadata needed to generate the mtf file? Also, is...

Error in installing package

4

Hi, I get the error below when trying to install Azimuth: ERROR: dependencies ‘hdf5r’, ‘SeuratDisk’ are not available for package ‘Azimuth’ * removing ‘/home/czf316/R/x86_64-pc-linux-gnu-library/4.2/Azimuth’ Warning messages: 1: In i.p(...) :...

Hi everyone. I would like to try using your R package to look for motifs in my RNA-Seq dataset, but I realise the mouse databases only include mm9 and mm10...

Set y-axis scale for different sample types

1

I'd like to plot bw files from my ATAC-Seq samples with the same y-axis scale for all samples alongside sashimi plots for my RNA-Seq samples with variable y-axis scales. Would...