igor
igor
Thank you for following up. That's an interesting idea about combining with the genotypes VCF. I don't usually deal with VCFs and especially writing them. Do you know if there...
I saw the next line about pysam. That installed fine with pip as suggested. However, I still needed to install samtools after that.
@saeedfc It sounds like you are trying to install it manually ("where I should place the samtools directory"). The solution would be to add it to your PATH, but try...
Is LiftOver an appropriate solution? Since this is an updated build, some of the problematic regions were resolved and others may have been introduced.
Are you sure you are adding the BED file to the correct project directory? Also, please check the entire log file. Just the error line is usually not enough.
Since it's the same workflow for WES and WGS, you can add a full-genome BED file (the whole genome is targeted). There is a `genome.bed` in the reference directory. You...
There is a `wes-pairs-cnv` route for copy number analysis using Control-FREEC. It does not generate SEG files, but you may be able to generate them from other output that it...
There is probably a problem with file formatting (when you saved the file). As I mentioned previously, if you see any errors, please check the full log file. The error...
I don't understand. You say you are getting the same error, but posting a new error.
I understand where the errors are from. I meant that this is not an error you reported earlier. You introduced a new one. When you edited `settings.txt`, you may have...