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211 results • Page
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Showing :
SNPs
•
reset
1
Vote
2
Replies
83
Views
bayenv2: "initial epsilon zero or 1 locus 6912"
bayenv2
snps
19 months ago
sonia.olaechea
• 90
• updated 19 months ago
katuckele
• 10
0
Votes
1
Reply
4.8k
Views
Applying hard filters for variants
snps
variants
variant calling
GATK
5.2 years ago
bioinforesearchquestions
• 230
• updated 19 months ago
Biostar
20
0
Votes
0
Replies
89
Views
Suggest vcf filtered parameter for gatk VariantFiltration
gatk4
snps
19 months ago
Mbillah
• 110
• updated 19 months ago
WouterDeCoster
39k
1
Vote
3
Replies
154
Views
In which step should plink be used?
plink
snps
20 months ago
felipead66
• 30
• updated 20 months ago
WouterDeCoster
39k
0
Votes
2
Replies
139
Views
Checking regions with high density of SNPs
high density
snps
20 months ago
bwczech
• 70
0
Votes
2
Replies
142
Views
Lots of alleles in the same place?
variants
alleles
snps
bcftools
20 months ago
tbb21
• 10
• updated 20 months ago
Kevin Blighe
43k
2
Votes
8
Replies
207
Views
Merge two files depending on multiple matching columns
annotation
snps
21 months ago
iya837
• 0
1
Vote
2
Replies
191
Views
Summary from a vcf file
snps
vcf
21 months ago
felipead66
• 30
• updated 21 months ago
Arup Ghosh
♦ 1.3k
0
Votes
2
Replies
152
Views
minimum snp number from set in LD
snps
ld
minimum snp number
21 months ago
RNAseqer
• 110
• updated 21 months ago
MatthewP
• 110
3
Votes
2
Replies
170
Views
pulling snps from vcf file using ids
vcf
ids
snps
21 months ago
RNAseqer
• 110
• updated 21 months ago
Kevin Blighe
43k
1
Vote
0
Replies
131
Views
Error in snphylo
snplylo
snps
21 months ago
felipead66
• 30
• updated 21 months ago
zx8754
7.5k
1
Vote
1
Reply
157
Views
query and export SNPs information from ensembl
ensembl
snps
maf
22 months ago
landivincenzo
• 0
• updated 22 months ago
Ben_Ensembl
• 980
0
Votes
12
Replies
346
Views
SNps and calculation of sample size
snps
22 months ago
efsvdo
• 0
• updated 22 months ago
pltbiotech_tkarthi
• 170
0
Votes
0
Replies
215
Views
From mpileup on bam files to TMB calculation, how is it done?
mutations
TMB
snps
bam
mpileup
23 months ago
Pin.Bioinf
• 240
1
Vote
5
Replies
388
Views
Difference between Private SNPs and Singleton SNPs
SNPs
GATK
variant calling
SNP
population genetics
23 months ago
prasundutta87
• 330
5
Votes
8
Replies
993
Views
VariantCalling with single sanger read
VariantCalling
snps
indel
blast
4.4 years ago
Amirosein
• 70
• updated 23 months ago
trausch
♦ 1.3k
0
Votes
2
Replies
229
Views
Change ALT field in VCF
vcf
snps
gwas
23 months ago
sonia.olaechea
• 90
1
Vote
8
Replies
469
Views
How to calculate the fraction of bases that are different from the reference base using samtools mpileup ?
samtools mpileup
snps
reference base
fractions
24 months ago
M.O.L.S
• 10
4
Votes
5
Replies
333
Views
PLINK assoc input: can it be two vcf files case/control?
PLINK
vcf
snps
association
2.1 years ago
Pin.Bioinf
• 240
• updated 2.1 years ago
Kevin Blighe
43k
0
Votes
1
Reply
230
Views
Ensembl Biomart Allele Frequency for different ethnicity
ensembl BioMart
allele frequency
SNPs
MAF
2.1 years ago
iside
• 10
0
Votes
2
Replies
245
Views
Identifying consensus sequence between multiple Arabidopsis genome sequences
Alignment
Consensus
SNPs
Variations
Plant
2.1 years ago
bioinforesearchquestions
• 230
3
Votes
4
Replies
1.3k
Views
Extract SNPs and SNP ID's from vcf file
1000Genomes
SNPs
extract
VCF
3.2 years ago
aadhirareddy1323
• 20
• updated 2.1 years ago
zx8754
7.5k
0
Votes
2
Replies
1.6k
Views
GATK DP filter for multiple samples
gatk
snps
4.5 years ago
sun.nation
• 120
• updated 2.1 years ago
Flávia Rogério
• 0
6
Votes
6
Replies
641
Views
1000Genomes population allele frequencies for list of SNPs
snps
1000Genomes
2.1 years ago
sonia.olaechea
• 90
• updated 2.1 years ago
Pierre Lindenbaum
120k
17
Votes
25
Replies
20k
Views
7 follow
Remove columns and rows which have only NAs without deleting all the data
missing data
R
correlation
SNPs
3.5 years ago
ElenaL
• 0
• updated 2.1 years ago
slegotsky
• 0
0
Votes
2
Replies
1.5k
Views
Hardy-Weinbergy Equilibrium and SNPs
hardy-weinberg
SNPs
minor allelic frequency
5.2 years ago
waynestatetutor
• 0
• updated 2.1 years ago
Biostar
20
2
Votes
3
Replies
1.1k
Views
Nanopore SNP and indels calling tool
nanopore
snps
indels
calling
tools
2.5 years ago
tarek.mohamed
• 250
• updated 2.1 years ago
WouterDeCoster
39k
0
Votes
3
Replies
340
Views
find LD of list of SNPs, located on different chromosomes
LD
SNPS
list
different chromosomes
2.1 years ago
anamaria
• 40
• updated 2.1 years ago
toralmanvar
• 760
9
Votes
3
Replies
23k
Views
Obtaining The Snp Rs Number With The Chromosomal Position
r
snps
bioconductor
7.7 years ago
Sheila
• 300
• updated 2.2 years ago
hsiaoyi0504
• 40
10
Votes
10
Replies
802
Views
Minor allele frequency
GWAS
SNPs
Alleles
4.1 years ago
alessandrotestori7
• 330
• updated 2.2 years ago
Biostar
20
3
Votes
3
Replies
496
Views
How to download VCF of 1000 genome project with population frequencies?
SNPs
1000Genome
VCF
rsids
2.2 years ago
bioinforesearchquestions
• 230
• updated 2.2 years ago
finswimmer
11k
5
Votes
3
Replies
1.0k
Views
GWAS in Plink - phenotype file format
GWAS
plink
snps
phenotype
2.2 years ago
SGMS
• 60
• updated 2.2 years ago
zx8754
7.5k
0
Votes
5
Replies
514
Views
Error: Snakemake skiped a rule
snakemake
snakefile
snps
indels
pipeline
2.2 years ago
c.clarido
• 50
• updated 2.2 years ago
rizoic
• 190
0
Votes
2
Replies
363
Views
Best practices for variant calling on multiple sequencing runs of the same sample
variant calling
snps
vcf
2.3 years ago
Damian Kao
15k
• updated 2.3 years ago
swbarnes2
5.7k
0
Votes
0
Replies
330
Views
GTEX - how to upload more than one rsIDs to get gene expression or eQTL information
GTEx
snps
rsids
2.3 years ago
SGMS
• 60
1
Vote
1
Reply
722
Views
Error: Line 2 of .ped file has more tokens than expected.
plink
snps
2.3 years ago
sonia.olaechea
• 90
• updated 2.3 years ago
zx8754
7.5k
5
Votes
9
Replies
961
Views
7 follow
Need help with R script to edit x-axis of snp density plot
snps
density
chromosome
R
2.5 years ago
deepti1rao
• 20
• updated 2.3 years ago
bernatgel
♦ 1.9k
6
Votes
11
Replies
458
Views
Finding out if certain SNP positions fall into certain gene regions
snps
gene
region
R
unix
2.3 years ago
SGMS
• 60
• updated 2.3 years ago
Alex Reynolds
28k
1
Vote
3
Replies
387
Views
Preference about IMPUTATION TOOL
imputation
tool
snps
2.3 years ago
wonseok.cchoi
• 0
• updated 2.3 years ago
thassia.carratto
• 10
1
Vote
2
Replies
299
Views
Using one bam file with huge coverage, How to generate several bam files with different coverage
bam
filter
SNPs
caller
2.4 years ago
tarek.mohamed
• 250
• updated 2.4 years ago
WouterDeCoster
39k
3
Votes
5
Replies
3.0k
Views
Identifying private and shared SNPs using VCFtools
vcftools
snps
4.6 years ago
outlier95
• 10
• updated 2.4 years ago
Jorge Amigo
11k
0
Votes
1
Reply
273
Views
vcf v4.2 consequences of missense snps
vcf
plant
missense
snps
SIFT
2.4 years ago
deepti1rao
• 20
0
Votes
5
Replies
478
Views
TCGA SNP data
TCGA
maf2vcf
SNPs
PAAD
2.5 years ago
archie
• 70
• updated 2.5 years ago
Kevin Blighe
43k
0
Votes
4
Replies
559
Views
run plink with locus has more than 2 alleles
plink
snps
ROH
2.5 years ago
mary
• 200
1
Vote
1
Reply
321
Views
Classify benign tumor vs malign tumor
tumor
snps
indels
2.5 years ago
roalva1
• 80
3
Votes
2
Replies
300
Views
amino acid alteration position for SNPs using biomart
biomart
snps
locations
aminoacids
2.6 years ago
tarek.mohamed
• 250
• updated 2.6 years ago
Benn
6.9k
4
Votes
4
Replies
540
Views
Find all rsid synonyms for a list of rsids
Ensembl
SNPs
rsids
2.6 years ago
Jab
• 0
• updated 2.6 years ago
Mike Smith
♦ 1.2k
16
Votes
11
Replies
1.1k
Views
Obtaining rsIDs using BiomaRt or linux
R
Biomart
rsID
SNPs
bed
2.6 years ago
camerond
• 70
• updated 2.6 years ago
Pierre Lindenbaum
120k
3
Votes
1
Reply
428
Views
Benchmarking single SNP mapping
SNPs
bwa
mapping
bowtie
wgsim
2.7 years ago
Josh Herr
5.6k
• updated 2.7 years ago
Biostar
20
3
Votes
5
Replies
2.5k
Views
Somatic variants in exome normal/tumor data mostly in non-exonic regions. Is this a likely scenario?
SNPs
Mutect
next-gen
snp
6.4 years ago
ivivek_ngs
♦ 4.8k
• updated 2.7 years ago
Biostar
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