PapenfussLab gridss issues

PapenfussLab / gridss

GRIDSS: the Genomic Rearrangement IDentification Software Suite

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ALT coordinate

#685 uretaj opened 3 days ago
1
Conda install doesnt work

#684 amcpherson opened 3 weeks ago
0
Joint assembly and calling for multiple tumor/normal sample pairs

#683 ypradat closed 1 month ago
1
Are the docker image GRIDSS2 or GRIDSS version 1?

#682 lwtan90 opened 1 month ago
0
No index

#681 ucsfpan closed 1 month ago
0
What is the exact command to run gridss_somatic_filter?

#680 lwtan90 opened 2 months ago
0
Structural Variation Identification Using GRIDSS

#679 anitha-ravichandran opened 2 months ago
0
Are dependencies included in the docker image?

#678 lwtan90 closed 2 months ago
1
Illegal seek

#677 avrajit opened 2 months ago
2
Running into errors with conda version while docker/singularity work fine

#676 famosab opened 2 months ago
2
ERROR::INVALID_ALIGNMENT_START:Record 341, Read name 1-15215340, Mate Alignment start should be 0 because reference name = *

#675 kuangzhuoran opened 2 months ago
0
Fatal error: missing assembly is not missing

#674 afurches closed 2 months ago
0
SoftClipsToSplitReads error: mem: invalid option -- 'K'

#673 kostasgalexiou opened 3 months ago
0
gridss results MERGE problems with other SV recognition software

#672 HuangYihang1222 opened 3 months ago
3
NullPointerException during CollectGridssMetricsAndExtractSVReads

#671 vrohnie opened 3 months ago
0
How to find out INV?

#670 jamesc99 closed 3 months ago
1
Docker img doesnt work

#669 saphir746 opened 3 months ago
0
Unrecognized option: -r

#668 gamzemdn closed 3 months ago
3
Running Joint Calling

#667 HenryMarshall97 opened 4 months ago
0
VIRUSBreakend does not work

#666 lqsae closed 4 months ago
1
bcftools have no mpileup

#665 lqsae closed 4 months ago
0
Clarify `--assembly` in documentation

#664 famosab opened 4 months ago
0
Error with `gridss_somatic_filter`

#663 Teezi opened 4 months ago
2
Advice needed in regards to the GRIDSS blacklist

#662 Teezi opened 5 months ago
0
SVTYPE is Deprecated in Variant Call Format Specification

#661 DarioS closed 5 months ago
3
how to filter breadends that are only present in particular samples?

#660 yqlan closed 6 months ago
1
Indexed block-compressed FASTA file cannot be handled

#659 keeblee closed 5 months ago
2
Difference in number of integrations in virus summary vs. VCF

#658 AqsaAlam closed 5 months ago
3
Questions about using virusbreakend

#657 joaohl216 closed 5 months ago
1
error with simple-event-annotation.R script

#656 shaghayeghsoudi opened 8 months ago
2
about VIRUSBREAKEND output

#655 hidehitofukushima opened 8 months ago
0
RNA support

#654 kesner closed 5 months ago
1
Input BAM not recognized

#653 espelpz closed 5 months ago
1
Unable to run GRIDSS jar

#652 vialimju closed 10 months ago
3
#615 Updated libgridss to fix misplaced bracket

#651 JocelynSP opened 10 months ago
0
Can't retrieve reference files for GRIDSS-Purple-Linx pipeline

#650 pbousquets closed 10 months ago
0
GRIDDS results benchmarking queries:

#649 poddarharsh15 closed 10 months ago
2
Assemble step error

#648 poddarharsh15 closed 1 year ago
5
PoN: bed & bedpe

#647 acarbome7 closed 1 year ago
1
GRIDSS AnnotateInsertedSequence error with ~2.8 million SV events: htsjdk.samtools.util.RuntimeIOException: Stream closed

#646 scwatts opened 1 year ago
0
How to deal with bwa index and bowtie2 bam files?

#645 Ceonham closed 1 year ago
0
VIRUSBREAKEND > failure identifying viral sequences

#644 josh11351 opened 1 year ago
2
singularity, error on creating temp files

#643 aheravi opened 1 year ago
0
Blacklist errror

#642 uretaj closed 1 year ago
1
Exit code 9 when using hs37d5

#641 uretaj closed 1 year ago
2
Can gridss be used to mouse genome?

#640 Kailiang-Qiao closed 1 year ago
1
virusbreakend docker image issue: BAM index not found

#639 ugh-astya opened 1 year ago
0
Disable pdf creation/running R scripts at preprocess step

#638 pruzanov opened 1 year ago
0
T2T reference

#637 BethHudson-Lund closed 1 year ago
1
gridss for long-read data?

#636 kerstinth closed 1 year ago
2