fritzsedlazeck Sniffles issues

fritzsedlazeck / Sniffles

Structural variation caller using third generation sequencing

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issues

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Breakpoints of SVs

#532 reshu23 opened 2 days ago
2
Ref base always 'N', despite providing --reference FASTA

#531 bbimber opened 1 week ago
0
Dramatic change in GTs with smaller size DEL SV

#530 tuannguyen8390 opened 1 week ago
6
Very high proportion 0/1 genotype in DUP, BND and INV

#529 hui-liu opened 1 week ago
0
Do you really need to limit to python 3.10?

#528 bbimber closed 1 week ago
2
unexpected whole genome SV

#527 SchwarzMarek closed 2 weeks ago
2
Considerably more insertions than deletions - is this expected?

#526 bbimber closed 1 week ago
2
masked regions

#525 askleppe opened 2 weeks ago
1
Release patch 2.5.2

#524 lfpaulin closed 2 weeks ago
0
Release patch for edlib constrains

#523 lfpaulin closed 2 weeks ago
0
sniffles 2.5 produces variant longer than contig

#522 bbimber opened 2 weeks ago
5
Add check for empty list

#521 bbimber closed 2 weeks ago
1
sniffles.worker (3082238): Worker 2 received error: list index out of range

#520 bbimber closed 1 week ago
9
Update vcf.py to have correct END value for DEL SVTYPE

#519 gaberudy closed 2 weeks ago
1
Update vcf.py to have correct END value

#518 gaberudy closed 2 weeks ago
1
Usage of Sniffles2 for direct RNA sequencing output

#517 kaltinel opened 3 weeks ago
1
Question - parameters Sniffles2

#516 madagiurgiu25 closed 3 weeks ago
2
--max-del-seq-len currently not output sequence as expected

#515 tuannguyen8390 closed 3 weeks ago
1
Inquiry about Coverage in Multi-Sample SV Calling

#514 vivi-1406 closed 3 weeks ago
1
bug: BND evidence from supplementary alignements discarded (sometimes)

#513 yfarjoun opened 1 month ago
0
TypeError: cannot pickle '_thread.RLock' object on macOS

#512 madagiurgiu25 closed 2 weeks ago
2
Question: Would Sniffles work for simple mitochondrial (haploid) SNPs and indel calling with ONT R10?

#511 juanjo255 closed 1 month ago
0
Type of BND connection mislabeled

#510 ryan-moreno opened 2 months ago
0
no SVs were called in large gap

#509 hjt1129 closed 2 months ago
3
Some "FILTER" lines not defined in raw VCF header

#508 simondrue closed 1 month ago
1
Accessing dev releases/OSX Parallelism bug

#507 ryan-moreno closed 2 months ago
1
Fatal error when genotyping VCF with missing QUAL

#506 Han-Cao closed 3 weeks ago
2
false genotyping large deletion

#505 DHmeduni opened 3 months ago
14
Optionally emit SV lengths

#504 yfarjoun closed 3 weeks ago
7
Allow the optional emission of sv length of evidence

#503 yfarjoun closed 3 weeks ago
0
Are calls made from supplementary alignments?

#502 jo-mc opened 3 months ago
2
<INS> sequence missing in ALT field and represented as C<INS>, T<INS>, A<INS>, G<INS>

#501 leone93 closed 3 weeks ago
4
Why the longest insertion is very short

#500 hui-liu closed 4 months ago
2
fix parallelism for osx

#499 yfarjoun closed 3 months ago
0
Can't run _any_ version > 2.2 without an Exception.

#498 yfarjoun closed 3 months ago
6
Invalid END position

#497 ACEnglish opened 4 months ago
3
Difference between SUPPORT, DV and RNAMES

#496 kamilafras opened 4 months ago
3
Updated --help

#495 ACEnglish opened 4 months ago
0
Does Sniffles need cs tag

#494 hui-liu closed 4 months ago
1
variant allele frequency adjustment

#493 abosco4406 closed 1 month ago
1
Does sniffles work on haploid genomes

#492 Machadum closed 1 month ago
1
Segmentation fault: 11 on modbam files (ONT)

#491 Machadum closed 1 month ago
3
Installation issue on apple M2

#490 Machadum closed 4 months ago
10
tandem repeat annotation for another human genome resource

#489 ilivyatan closed 5 months ago
1
Phailed SV phasing

#488 agatafant opened 5 months ago
1
How to turn off joint genotyping in multisample calling

#487 tnguyengel closed 3 weeks ago
1
Detection of Reciprocal BNDs

#486 Carly-KT opened 5 months ago
0
vcf results are different between one-step direct calling and snf-vcf calling

#485 lg10is1 closed 5 months ago
1
Significantly reduced DEL SUPPORT

#484 weishwu opened 5 months ago
5
[Report] Significant inflation of INS when joint calling with Sniffles 2.3.3

#483 tuannguyen8390 closed 5 months ago
11