tfwillems HipSTR issues

tfwillems / HipSTR

Genotype and phase short tandem repeats using Illumina whole-genome sequencing data

GNU General Public License v2.0

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issues

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question about the HipSTR

#99 litun-fkby opened 1 month ago
0
question about large-scale run

#98 muyao11 closed 1 month ago
2
question about the VizAlnPdf

#97 litun-fkby opened 2 months ago
0
Reading CRAMs from S3 bucket

#96 james-guevara opened 3 months ago
0
Will HipSTR genotype imperfect repeat regions ?

#95 PlanetEarth001 closed 4 days ago
1
VCF filtering issue

#94 hannah-happ closed 6 months ago
1
Invalid CIGAR char N

#93 yinxy1992 opened 8 months ago
0
Questions about the alt column of the output file

#92 wangxuleiii opened 10 months ago
0
Processing HipSTR with different BED file chunks and merging the output - Phasing process

#91 think-o opened 1 year ago
0
Isoalleles using HipSTR tool

#90 Tfronta opened 1 year ago
0
Add maximum accepted motif length to README

#89 dinovski opened 1 year ago
0
HipSTR not taking the motif lengths > 9

#88 think-o opened 1 year ago
1
How to segment STR region and flanking region in reads ?

#87 Lidweixiang opened 1 year ago
0
Question HipSTR + reference genome hg19 + ancientDNA

#86 arenvale opened 2 years ago
0
align with DSMZ

#85 aubreybailey opened 2 years ago
0
Working with HipSTR

#84 jayala closed 6 months ago
2
compile in windows

#83 XuewenWangUGA opened 2 years ago
0
BAM from GATK best practice

#82 sbgLuka opened 2 years ago
1
Unknown source of error

#81 gabrielle-altman opened 3 years ago
1
Different positions included as part of STR locus depending on run

#80 plavskin closed 3 years ago
2
bwa mapping of diverged alleles

#79 yannickwurm opened 3 years ago
0
Using the same bed genotyping different datasets, sometime HipSTR stop running at some loci.

#78 JiruHan closed 3 years ago
0
phasing results

#77 zhangguy closed 4 years ago
1
adapter trimming issue

#76 dinovski closed 4 years ago
3
samples from different projects

#75 zhangguy closed 4 years ago
0
No output for a specific locus

#74 liuqianhn closed 4 years ago
1
AMEL bed area not in the provided bed file

#73 zhangyafeng1 closed 4 years ago
1
filter_haploid_vcf.py

#72 JiruHan closed 4 years ago
2
filter_haploid_vcf.py

#71 JiruHan closed 4 years ago
0
Panel Sequencing or WES is use cases of HipSTR ?

#70 npatel22526 closed 4 years ago
2
ERROR: Failed to load the index for file xxx.bam

#69 shiyirong closed 4 years ago
6
Is read group necessary?

#68 liuqianhn closed 4 years ago
3
Pooled samples and different ploidy

#67 inti opened 5 years ago
1
[E::fai_retrieve] Failed to retrieve block: unexpected end of file

#66 matteodelucchi closed 5 years ago
2
Requirements

#65 jayala closed 5 years ago
1
HipSTR output

#64 CodyS5 closed 5 years ago
1
ERROR cram_io from htslib: include bzlib.h

#63 inti closed 5 years ago
6
Argument list too long

#62 SergeyPhys closed 5 years ago
2
Add functionality to report data about the full haplotype as opposed to just the STR sequence

#61 tfwillems closed 5 years ago
0
Illumina adapter trimming

#60 tfwillems closed 5 years ago
0
Using HipSTR on RNA-seq data

#58 guillermomarco closed 6 years ago
3
lzma.h issue

#57 richyanicky closed 6 years ago
1
Adding STRs PCR stutter models to HipSTR

#56 ofirr opened 6 years ago
0
Memory allocation issue

#55 willibry closed 6 years ago
9
problem with FLANK_ASSEMBLY_CYCLIC

#54 lvf1990 closed 6 years ago
1
Report only repetitive portions of alleles

#53 cadlag1 closed 6 years ago
1
repeat unit in the reference?

#52 shukwong closed 6 years ago
5
Error filtering diploid STR calls: filter_vcf.py

#51 SteveSemick closed 6 years ago
2
Problem with read IDs repeated in the same BAM file

#50 gymreklab opened 6 years ago
5
How does HipSTR do re-alignment

#49 nh13 closed 6 years ago
1