GangSTR
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gymreklab
A tool for profiling long STRs from short reads
I have a question about complex repeats for example the forensic STR locus [D2S1388](https://strbase.nist.gov/Human/VariantalleleTable/D2S1338) contains a repeat sequence pattern : [GGAA]n [GGAC]n [GGAA]n [GGCA]n How would I format this for...
Dear all, I got the error "[GangSTR-2.5.0] ERROR: Error extracting read length" when I run GangSTR. I try to found solution but noway. First, I make sure the reference matches...
Thanks for the great tool. if there is any way to annotate the vcf output to the 13 CORDIS core STR? eg, for cell line authentication? Amelogenin | X CSF1PO...
Dear all, Thank you for providing this excellent software! When I use the 1_run_TRF.sh script to create a custom reference panel, I meet the error below: chr_make_reference.sh: line 11: =X:...
Hi team, Thanks for your time. I'm using the GangSTR and dumpSTR tools on a set of WES data profiling tandem repeats from short reads. I have encountered some questions:...
Hello team, I'm trying to look back to the reads from where the variant call has been generated, but i see there is lot of difference in reads when compared...
Dear all, We found a warning message when we were using GangSTR [WARNING: Region exceeds maximum total processed reads per sample]. We thought it might be related to the parameter...
When I try to install, I always encounter this problem repeatedly during the ‘make’ step, ```configure.ac: error: required file 'config.sub' not found configure.ac: error: required file 'config.guess' not found configure.ac:...
Our command . `GangSTR --bam sample1.bam,sample2.bam --bam-samps sample1,sample2, --samp-sex M,F --ref $pathref/Homo_sapiens_assembly38.fasta --regions $pathchr/regions --out $pathvcf/vcf --include-ggl` Facing Error. ``` [GangSTR-2.5.0] ProgressMeter: Loading read group sample1 for file sample1.bam [GangSTR-2.5.0]...
