search

jbloomlab / dms_tools2

software for the analysis and visualization of deep mutational scanning data
GNU General Public License v3.0
29 stars 20 forks source link

Analysis with single-Read data #54

Closed euphowayne78 closed 3 years ago

euphowayne78 commented 3 years ago

Hi,

I am trying to analyze my single-read library with dms2_bcsubamp using the following command by either leaving out a value for R2START or by setting it to 0,

dms2_bcsubamp \ --outdir /Users/wee/HTS/Zip/Results/Minus1/ \ --name Minus1 \ --use_existing no \ --refseq /Users/wee/HTS/Zip/Template/Fidelity.fasta \ --alignspecs 1,93,17,0 \ --bclen 14 \ --fastqdir /Users/wee/HTS/Zip/HTStream/Minus1/ \ --R1 Minus1.htstream_SE.fastq

and of course I got back an error message saying that R2START must be >=1. I am wondering if there is a way around this to enable single-read analysis?

jbloom commented 3 years ago

Unfortunately the code isn't really set up to enable this right now. It might be possible to modify to enable it, but I don't anticipate having time to do that soon.

euphowayne78 commented 3 years ago

Got it. Thanks Jesse!