svict

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double free or corruption (!prev)

2

Hi, I have read paper of SViCT and tried to use this tool for my analysis. The compilation was successful and ran this tool using cfDNA sample and the core...

sungkyu-kyung

Segmentation fault

7

Hello, When I run GRIDSS for a certain patient an error occurs when assembling the contigs. ``` chrM chr1 chr2 chr3 chr4 chr5 chr6 chr7 chr8 chr9 chr10 chr11 chr12...

BoudSTER

bam file sorted and index existed. but this error recured

zhuzd-xz

log file : chrM chr1 chr2 chr3 chr4 chr5 chr6 chr7 chr8 chr9 chr10 chr11 chr12 chr13 chr14 chr15 chr16 chr17 chr18 chr19 chr20 chr21 chr22 chrX chrY Assembling contigs......

sharkLoc

I got an error “Supplemental mappings (null) are missing in SAM/BAM, file might be invalid”

4

logging file ： Assembling contigs... chrchr1 done chrchr2 done chrchr3 done chrchr4 done chrchr5 done chrchr6 done chrchr7 done chrchr8 done chrchr9 done chrchr10 done chrchr11 done chrchr12 done chrchr13...

happyxhz

Issues running svict

3

Hi, I'm trying to run this on a regular bwa mem bam file. I noticed 2 issues: 1. svict expects "SO:coordinate" as the third column but in the bam that...

shahmj

Hi authors, `svict` is a really fast tool of calling SVs，but I am a little confused about the format of the output vcf . Here is an example, I do...

xyw1

Dear authors, I am trying to run svict with a gtf file to annotate variants. I downloaded the gtf from igenomes and I get an error message of wrong file...

nandobonf

DP tag

1

Is it possible for us to get the total number of reads at the variant position? `##INFO= ` This will help us in the allele fraction calculations. Kindly revert back...

drvenki

output vcf format

2

Hi I am trying to use svict for prostate cancer cfdna data and I have trouble understanding the format of the vcf ``` #CHROM POS ID REF ALT QUAL FILTER...

drvenki