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questions
0
votes
0
replies
142
views
Missing NaNs in correlation matrix for fine-mapping
GWAS
Finemapping
plink
4 weeks ago by
always_learning
★ 1.1k
0
votes
1
reply
458
views
Assistance Needed with Converting VCF File for BOLT-LMM Usage
BOLT-LMM
PLINK
IMPUTE
GWAS
dosage
updated 8 months ago by
chrchang523
10k • written 8 months ago by
always_learning
★ 1.1k
24
votes
20
replies
26k
views
8 follow
Converting Gvcf Files Into Vcf
vcf
updated 18 months ago by
Shicheng Guo
★ 9.4k • written 10.5 years ago by
always_learning
★ 1.1k
0
votes
0
replies
324
views
uniformly processing TCGA data and Gtex data
RNASeq
cancer
edaseq
RECOUNT3
updated 21 months ago by
ATpoint
81k • written 21 months ago by
always_learning
★ 1.1k
1
vote
1
reply
3.4k
views
Difference between Cosmic Annotation from VEP and directly from COSMIC VCF.
VEP
Annotation
updated 3.1 years ago by
yussab
▴ 90 • written 7.5 years ago by
always_learning
★ 1.1k
1
vote
3
replies
4.1k
views
Gvcf Format From Illumina
illumina
ngs
updated 3.2 years ago by
Biostar
20 • written 10.5 years ago by
always_learning
★ 1.1k
0
votes
5
replies
1.1k
views
RNA Seq and Somatic Calls for the Cancer data
RNA-Seq
somatic
tumor
updated 3.6 years ago by
Kevin Blighe
87k • written 3.6 years ago by
always_learning
★ 1.1k
0
votes
1
reply
1.2k
views
GENE BURDEN TEST
EXOME GENE BURDEN
3.7 years ago by
always_learning
★ 1.1k
0
votes
1
reply
3.2k
views
Can Some One Explain These Gatk Unifiedgenotyper Commands And Difference In Terms Of Output Also
gatk
variant
ngs
updated 4.9 years ago by
Biostar
20 • written 10.5 years ago by
always_learning
★ 1.1k
2
votes
6
replies
1.9k
views
VCFParseError: ploidy > 2 not supported
VCF
GATK
PLOIDY
updated 5.1 years ago by
tpoterba
▴ 50 • written 5.2 years ago by
always_learning
★ 1.1k
16
votes
12
replies
11k
views
7 follow
Annotation for SV and CNV
Annotation
CNV
SV
updated 5.5 years ago by
WouterDeCoster
47k • written 7.8 years ago by
always_learning
★ 1.1k
1
vote
7
replies
1.7k
views
AF comparison between two population.
R Statistical test
AF
5.5 years ago by
always_learning
★ 1.1k
4
votes
4
replies
3.8k
views
Extracting upstream and Downstream of a Gene based on different intervals
intervals
upstream
updated 5.8 years ago by
sacha
★ 2.4k • written 5.8 years ago by
always_learning
★ 1.1k
2
votes
16
replies
3.9k
views
Pysam fetch for records not exists in VCF files
pysam
fetch
updated 5.9 years ago by
Vasisht
▴ 190 • written 7.4 years ago by
always_learning
★ 1.1k
3
votes
3
replies
4.1k
views
Unique SNP sharing between populations
SNP
updated 2.4 years ago by
Ram
43k • written 9.7 years ago by
always_learning
★ 1.1k
6
votes
9
replies
6.8k
views
Using parallel with Mem
mem
Parallel
BWA
updated 2.5 years ago by
Ram
43k • written 9.9 years ago by
always_learning
★ 1.1k
0
votes
0
replies
1.2k
views
Illumina genotyped the HapMap populations on the MetaboChip
HapMap
Population genetics
6.4 years ago by
always_learning
★ 1.1k
1
vote
3
replies
2.4k
views
Gene Expression Downstream Analysis
gene Expression
Survival Analysis
6.5 years ago by
always_learning
★ 1.1k
44
votes
10
replies
30k
views
7 follow
Homozygous Indel/Snp & Heterozygous Indel/Snp
snp
updated 6.7 years ago by
ibseq12
• 0 • written 10.6 years ago by
always_learning
★ 1.1k
5
votes
2
replies
6.1k
views
ROH ( Runs of Homozygosity Analysis)
ROH
WGS
6.8 years ago by
always_learning
★ 1.1k
0
votes
1
reply
1.4k
views
Biomart error while convertint transcript ID.
biomart
6.9 years ago by
always_learning
★ 1.1k
1
vote
1
reply
3.0k
views
calculating weighted jaccard metrics
weighted jaccard
7.0 years ago by
always_learning
★ 1.1k
0
votes
0
replies
1.0k
views
Exogenous and Endogenous Virus Analysis from Human WGS data
WGS
Exogenous
Endogenous
sequencing
7.1 years ago by
always_learning
★ 1.1k
0
votes
1
reply
1.5k
views
Undersstanding these SNAP command at SURPI
SURPI
SNAP
updated 7.1 years ago by
hamzakhanvit
▴ 10 • written 7.9 years ago by
always_learning
★ 1.1k
1
vote
4
replies
2.6k
views
CRAM conversion to .BAM or FastQ not working
CRAM
BAM
updated 7.5 years ago by
Devon Ryan
104k • written 7.5 years ago by
always_learning
★ 1.1k
0
votes
0
replies
1.0k
views
RNASEQ .bam of various type Tumours
SRA
CANCER
updated 7.5 years ago by
Biostar
20 • written 7.6 years ago by
always_learning
★ 1.1k
2
votes
5
replies
9.5k
views
Downloaing SRA using Aspera
SRS
NCBI
ASPERA
7.6 years ago by
always_learning
★ 1.1k
3
votes
5
replies
6.6k
views
Running Delly for structural Variants
Delly
SV
updated 2.8 years ago by
Newbie
• 0 • written 7.6 years ago by
always_learning
★ 1.1k
2
votes
3
replies
4.7k
views
Converting Thousand genome BCF file into VCF with BCFtools
bcftools
updated 7.8 years ago by
Jorge Amigo
14k • written 7.8 years ago by
always_learning
★ 1.1k
0
votes
7
replies
2.9k
views
NGS Analysis Pipeline for Targeted Panel Data for SOMATIC tumours
somatic
NGS
panel
7.8 years ago by
always_learning
★ 1.1k
0
votes
2
replies
4.7k
views
GERP score for all positions
GERP annotation
Conservation
GERP
7.8 years ago by
always_learning
★ 1.1k
1
vote
3
replies
1.4k
views
not getting values for Filter columns with vcf files generated using SAMTOOLS Mpileup
SAMTools
VCF
7.9 years ago by
always_learning
★ 1.1k
0
votes
2
replies
2.6k
views
getting GQ values with VCF using SAMTOOLS Mpileup
SAMTOOLS
updated 7.9 years ago by
Shane McCarthy
▴ 370 • written 7.9 years ago by
always_learning
★ 1.1k
1
vote
5
replies
2.6k
views
A fatal error has been detected by the Java Runtime Environment while running Genome Strip.
genomestrip
CNV
7.9 years ago by
always_learning
★ 1.1k
4
votes
8
replies
5.8k
views
What Companies Offer Genome Sequencing Services In India ?
ngs
sequencing
updated 7.9 years ago by
Costerwell Khyriem
• 0 • written 10.6 years ago by
always_learning
★ 1.1k
2
votes
4
replies
3.4k
views
Whole Genome Sequences somatic MAF files at TCGA
TCGA
MAF
Cancer
WGS
updated 7.9 years ago by
Chris Miller
22k • written 7.9 years ago by
always_learning
★ 1.1k
1
vote
1
reply
1.8k
views
Machine learning for finding patterns
Machine Learning
Pattern Searching
updated 8.0 years ago by
Michael
54k • written 8.0 years ago by
always_learning
★ 1.1k
1
vote
5
replies
7.6k
views
GenomeStudio genotype format to VCF?
Genotype
updated 20 months ago by
Ram
43k • written 8.4 years ago by
always_learning
★ 1.1k
1
vote
1
reply
4.0k
views
CADD score at dbNFSP
dbNFSP
CADD
updated 18 months ago by
Ram
43k • written 8.6 years ago by
always_learning
★ 1.1k
0
votes
0
replies
2.6k
views
Error with SNPSift while using dbNSFP2.9.txt.gz for annotation
SNPeff
Annotation
SNP
SNPSift
updated 17 months ago by
Ram
43k • written 8.6 years ago by
always_learning
★ 1.1k
0
votes
1
reply
1.8k
views
A web interface for HPC system for submitting and monitoring jobs mostly NGS jobs.
NGS
JAVA
updated 2.1 years ago by
Ram
43k • written 9.3 years ago by
always_learning
★ 1.1k
1
vote
3
replies
2.4k
views
Mt DNA haplogroup analysis from HTS data
haplogroup
Mt
updated 2.0 years ago by
Ram
43k • written 9.2 years ago by
always_learning
★ 1.1k
1
vote
3
replies
2.8k
views
Indels.vcf and SNPs.vcf from GATK ftp.
VCF
GATK
updated 2.1 years ago by
Ram
43k • written 9.4 years ago by
always_learning
★ 1.1k
0
votes
5
replies
2.8k
views
memory leak using pysam fetch
python
pysam
VCF
updated 3.0 years ago by
Ram
43k • written 9.4 years ago by
always_learning
★ 1.1k
0
votes
4
replies
5.3k
views
Error with Pysam tabix fetch
pysam
python
tabix
updated 2.2 years ago by
Ram
43k • written 9.5 years ago by
always_learning
★ 1.1k
0
votes
7
replies
2.2k
views
finding synonymous SNP'S
SNP
VEP
updated 2.3 years ago by
Ram
43k • written 9.6 years ago by
always_learning
★ 1.1k
0
votes
1
reply
2.6k
views
Error with Gemini
Gemini
updated 2.3 years ago by
Ram
43k • written 9.6 years ago by
always_learning
★ 1.1k
3
votes
2
replies
4.6k
views
Problem while merging two .ped files.
ped
bed
plink
updated 2.3 years ago by
Ram
43k • written 9.7 years ago by
always_learning
★ 1.1k
1
vote
2
replies
6.3k
views
problem while Installing BCFtools/htslib
htslib
installation
bcftools
updated 2.4 years ago by
Ram
43k • written 9.7 years ago by
always_learning
★ 1.1k
3
votes
3
replies
2.3k
views
Some Software That Can Assemble The Dna Sequence From Ngs Even If It Is From Mixed Microbial Sample.
ngs
updated 9.7 years ago by
Biostar
20 • written 10.5 years ago by
always_learning
★ 1.1k
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