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Showing :
questions
0
votes
0
replies
311
views
bootstraped treemix show no migration event
Treemix
Bootstrap
4 months ago by
reza
▴ 300
0
votes
2
replies
453
views
VCF conservation into Treemix
Treemix
Plink
VCF
3 months ago by
reza
▴ 300
2
votes
4
replies
814
views
how to filter a multi-sample VCF file based on 0/0 genotype numbers
genotype
VCF
CNV
8 months ago by
reza
▴ 300
0
votes
2
replies
1.1k
views
pooled-heterozygosity calculation
VCF
Population-Genetics
WGS
Selective-sweep
updated 10 months ago by
wonde2000
• 0 • written 2.5 years ago by
reza
▴ 300
0
votes
1
reply
740
views
Prolem with Dsuite program for introgression test
Introgression
Dsuite
updated 16 months ago by
Ken
• 0 • written 19 months ago by
reza
▴ 300
0
votes
0
replies
364
views
How to determine a threshold for fdm parameter to identify introgressed regions on genome
WGS
Introgression
Dsuite
19 months ago by
reza
▴ 300
0
votes
1
reply
794
views
ERROR: Variant physical position must be monotonically increasing
XPEHH
selscan
updated 2.3 years ago by
LauferVA
4.2k • written 2.4 years ago by
reza
▴ 300
0
votes
0
replies
594
views
different windows and snps for same vcf file while i calculate genetic diversity using vcftools
vcftools
pi
2.4 years ago by
reza
▴ 300
0
votes
0
replies
382
views
Pooled-heterozigosity (SECTION2)
Hp
VCF
Pooled_Heterozygosity
2.4 years ago by
reza
▴ 300
2
votes
4
replies
1.2k
views
Annotation of vcftools fst output using GTF or GFF
fst
vcftools
annotation
GTF
2.4 years ago by
reza
▴ 300
1
vote
4
replies
1.7k
views
ABBA BABA test for two population
introgression
genetics
Population
ABAB-BABA
updated 2.5 years ago by
Vic
▴ 100 • written 2.5 years ago by
reza
▴ 300
0
votes
4
replies
1.1k
views
How to filter GATK vcf file using other programs
VCF
Filtration
GATK
2.6 years ago by
reza
▴ 300
1
vote
1
reply
1.0k
views
Adding read groups to mark duplicated bam file
Picard
GATK
updated 2.7 years ago by
vdauwera
★ 1.2k • written 2.7 years ago by
reza
▴ 300
5
votes
6
replies
1.3k
views
Problem with limma in microarray analysis
limma
microarray
R
2.9 years ago by
reza
▴ 300
1
vote
7
replies
14k
views
A problem with download SRA using SRA toolkit
SRAtoolkit
NCBI
SRA
updated 10 months ago by
Ram
43k • written 4.2 years ago by
reza
▴ 300
1
vote
10
replies
1.8k
views
big loss after markduplication
MarkDuplicates
Re-sequencing
Picard
updated 3.0 years ago by
David Parry
▴ 130 • written 3.0 years ago by
reza
▴ 300
1
vote
1
reply
726
views
variant calling using masked reference genome
Bowtie2
Reference Genome
Variant Calling
3.1 years ago by
reza
▴ 300
0
votes
6
replies
1.4k
views
error in running Combat function
R
sva
Combat
R studio
3.3 years ago by
reza
▴ 300
0
votes
0
replies
698
views
Meta-Analysis of Microarray data (Afyymetrix)
Meta-Analysis
Microarray
Affymetrix
R
3.7 years ago by
reza
▴ 300
0
votes
0
replies
565
views
extraction of scaffolds from SOAPdenovo output
next-gen
Assembly
soapdenovo
scaffold
3.9 years ago by
reza
▴ 300
0
votes
7
replies
1.1k
views
Issue with Bowtie2 mapping
Bowtie2
Trimmomatic
mapping
Paired-End
4.7 years ago by
reza
▴ 300
4
votes
3
replies
2.5k
views
whole genome alignment using nucmer
Assembly
alignment
genome
nucmer
updated 5.0 years ago by
harishk0201
▴ 130 • written 5.0 years ago by
reza
▴ 300
1
vote
2
replies
1.5k
views
variant calling in mitochondria using whole genome sequencing
mitochondria
SNP
5.3 years ago by
reza
▴ 300
3
votes
8
replies
2.9k
views
several effect for one SNP annotated by SNPeff
SNPeff
annotation
SNP
5.4 years ago by
reza
▴ 300
6
votes
9
replies
2.9k
views
how to extract gene name for LOF (loss of function) variants
snpEff
LOF
variants
updated 5.7 years ago by
Pierre Lindenbaum
161k • written 5.7 years ago by
reza
▴ 300
2
votes
4
replies
2.2k
views
how to extract LOF variants from vcf file?
variants
vcf
Loss function variants
5.8 years ago by
reza
▴ 300
6
votes
11
replies
3.8k
views
number of functions is more than namber of variants in snpEff's output
snp
snpEff
next-gen
updated 5.9 years ago by
finswimmer
16k • written 7.1 years ago by
reza
▴ 300
2
votes
4
replies
3.7k
views
workflow for variant calling using GATK in multiple paired end reads
snp
next-gen
updated 6.1 years ago by
570932004
▴ 10 • written 7.3 years ago by
reza
▴ 300
6
votes
8
replies
3.9k
views
CNV detection using BAM file
CNV
BAM
updated 6.1 years ago by
Eric T.
★ 2.8k • written 6.1 years ago by
reza
▴ 300
0
votes
10
replies
4.7k
views
segmentation fault (core dumped) error when using BWA and BOWTIE
bwa
bowtie
software error
updated 6.3 years ago by
Devon Ryan
104k • written 6.3 years ago by
reza
▴ 300
4
votes
8
replies
2.9k
views
receive GC-content profile for a given window-size and splitting multi fasta file into separate fasta files by contigs name for running control-free
splitting
fasta
updated 6.4 years ago by
GenoMax
141k • written 6.4 years ago by
reza
▴ 300
0
votes
0
replies
1.6k
views
how to create target region track for CNV detection using Biomedical genomics workbench
CLC
CNV
target region
6.4 years ago by
reza
▴ 300
5
votes
2
replies
3.2k
views
change fastq header
fastq
updated 6.4 years ago by
Pierre Lindenbaum
161k • written 6.4 years ago by
reza
▴ 300
3
votes
3
replies
2.2k
views
how to download all bacterial complete genome from RefSeq?
sequence
genome
bactria
updated 6.5 years ago by
Ram
43k • written 6.5 years ago by
reza
▴ 300
0
votes
1
reply
2.5k
views
how to extract gene name for non-synonymous SNPs from annotated vcf file for GO analysis
snp
non-synonymous
GO
6.8 years ago by
reza
▴ 300
6
votes
6
replies
3.0k
views
Functional annotation of SNPs and genes containing nonsynonymous SNPs
SNP
gene
next-gen
ns SNPs
indel
6.9 years ago by
reza
▴ 300
5
votes
5
replies
3.2k
views
how to estimate mean and standard deviation read depth for all the variants?
SNP
next-gen
depth of coverage
7.0 years ago by
reza
▴ 300
5
votes
2
replies
7.0k
views
how to select longest isoform per gene in gtf
gene
GTF
annotation
updated 7.0 years ago by
A. Domingues
★ 2.7k • written 7.0 years ago by
reza
▴ 300
5
votes
6
replies
1.9k
views
ftp downloding error
ftp
next-gen
updated 7.0 years ago by
Biostar
20 • written 7.2 years ago by
reza
▴ 300
0
votes
4
replies
6.5k
views
building database in snpEff
software error
snpEff
snp
updated 7.1 years ago by
Biostar
20 • written 7.1 years ago by
reza
▴ 300
6
votes
6
replies
3.2k
views
variant calling after mapping via bwa mem
next-gen
snp
alignment
updated 7.3 years ago by
kirannbishwa01
★ 1.6k • written 7.3 years ago by
reza
▴ 300
0
votes
8
replies
4.5k
views
SNP annotation using gff3
SNP
sequencing
next-gen
updated 7.3 years ago by
harold.smith.tarheel
★ 4.9k • written 7.3 years ago by
reza
▴ 300
2
votes
5
replies
3.7k
views
beginner question BWA program
genome
alignment
7.3 years ago by
reza
▴ 300
2
votes
3
replies
2.5k
views
Trimmomatic for RNA-seq or Whole genome seuencing or for both?
next-gen
sequencing
updated 7.3 years ago by
harold.smith.tarheel
★ 4.9k • written 7.4 years ago by
reza
▴ 300
1
vote
3
replies
1.9k
views
SNP annotation in non model animals
SNP
next-gen
updated 7.4 years ago by
Biostar
20 • written 7.4 years ago by
reza
▴ 300
0
votes
1
reply
2.8k
views
Augustus running error
software error
next-gen
7.4 years ago by
reza
▴ 300
0
votes
2
replies
1.2k
views
publication of trial software
next-gen
Assembly
updated 7.5 years ago by
Biostar
20 • written 7.7 years ago by
reza
▴ 300
2
votes
5
replies
2.4k
views
CLC worcbench assembly
Assembly
next-gen
updated 7.6 years ago by
lakhujanivijay
5.8k • written 7.6 years ago by
reza
▴ 300
1
vote
4
replies
2.0k
views
installing ABYSS using cygwin
abyss
assembly
updated 7.6 years ago by
Charles Warden
8.2k • written 7.6 years ago by
reza
▴ 300
0
votes
6
replies
1.7k
views
running SOAP using 32G RAM
Assembly
next-gen
updated 7.6 years ago by
Rohit
★ 1.5k • written 7.6 years ago by
reza
▴ 300
58 results • Page
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