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questions
11
votes
11
replies
4.0k
views
7 follow
CNVKIT import errors
cnvkit
cnv
python
linux
updated 19 months ago by
GenoMax
141k • written 6.3 years ago by
alons
▴ 270
17
votes
9
replies
11k
views
Help with understanding CNVkit output
cnvkit
cnv
cancer
ngs
updated 4.5 years ago by
linouhao
▴ 10 • written 8.2 years ago by
alons
▴ 270
16
votes
12
replies
6.6k
views
Annotation of Structural Variants and CNVs
annotation
structural variants
cnv
ngs
cancer
updated 4.9 years ago by
abio
• 0 • written 8.1 years ago by
alons
▴ 270
18
votes
23
replies
5.0k
views
9 follow
Lack of consensus between NGS & Sanger sequencing on indels/mutations
Sanger
NGS
variant-calling
BWA-MEM
indel
updated 20 months ago by
Ram
43k • written 8.4 years ago by
alons
▴ 270
4
votes
3
replies
2.1k
views
Variant calling step order question: base recalibration & mark duplicates, which is first?
NGS
variant calling
cancer
pipeline
updated 6.7 years ago by
Brian Bushnell
20k • written 6.7 years ago by
alons
▴ 270
4
votes
1
reply
5.4k
views
Filter/Annotate VCF with dbSNP during variant calling workflow
dbSNP
vcf
bam
variant-calling
ngs
updated 17 months ago by
Ram
43k • written 8.8 years ago by
alons
▴ 270
2
votes
2
replies
3.6k
views
Freebayes tumor vs. normal inquiry
SNP
freebayes
ngs
tumor
updated 7.6 years ago by
sambrightman
▴ 20 • written 7.9 years ago by
alons
▴ 270
1
vote
1
reply
2.4k
views
Databases and annotation of translocations
translocations
ngs
cancer
databases
SV
updated 8.1 years ago by
natasha.sernova
★ 4.0k • written 8.1 years ago by
alons
▴ 270
10
votes
14
replies
7.1k
views
6 follow
Tools for SV & CNV detection
DNA
ngs
structural-variants
cnv
cancer
updated 21 months ago by
Ram
43k • written 8.2 years ago by
alons
▴ 270
3
votes
4
replies
4.3k
views
Lower GATK's HaplotypeCaller threshold for allele frequency as part of variant calling pipeline
gatk
vcf
freebayes
variant-calling
ngs
updated 18 months ago by
Ram
43k • written 8.8 years ago by
alons
▴ 270
2
votes
2
replies
3.6k
views
GATK recalibration, duplicates & realignment
alignment
gatk
realignment
bam
ngs
updated 16 months ago by
Ram
43k • written 8.9 years ago by
alons
▴ 270
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