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questions
12
votes
11
replies
6.8k
views
6 follow
Combine two VCF files with GATK4
GATK
updated 24 months ago by
Ram
44k • written 3.6 years ago by
MAPK
★ 2.1k
0
votes
1
reply
2.7k
views
GATK tool to merge INDEL with SNPs with the same set of samples
VCF
GATK
updated 3.5 years ago by
Biostar
20 • written 3.6 years ago by
MAPK
★ 2.1k
1
vote
4
replies
3.1k
views
Split plink files from multiallelic to biallelic
Plink
updated 3.2 years ago by
sayyarsehrish
• 0 • written 3.6 years ago by
MAPK
★ 2.1k
4
votes
4
replies
5.6k
views
How to remove chr from VCF file
VCF
updated 3.6 years ago by
tothepoint
▴ 890 • written 3.6 years ago by
MAPK
★ 2.1k
1
vote
1
reply
833
views
Working with multi-biallelic rows of VCF in plink
plink
vcf
gatk
3.6 years ago by
MAPK
★ 2.1k
3
votes
2
replies
2.3k
views
Plink error with reading phenotype file
plink
updated 3.6 years ago by
chrchang523
11k • written 3.6 years ago by
MAPK
★ 2.1k
0
votes
1
reply
1.1k
views
Calculating Allele Balance in GATK4
GATK
updated 2.8 years ago by
astrinaki_maria
• 0 • written 3.6 years ago by
MAPK
★ 2.1k
0
votes
0
replies
1.9k
views
MergeVcfs vs GatherVCFs in GATK 4
gatk
3.6 years ago by
MAPK
★ 2.1k
1
vote
2
replies
965
views
BWA aligner error: paired reads have different names
bwa
3.7 years ago by
MAPK
★ 2.1k
14
votes
12
replies
6.4k
views
Adapter trimming of small RNAseq data
smallRNAseq
RNA-Seq
adapter
trimming
updated 3.7 years ago by
Biostar
20 • written 6.1 years ago by
MAPK
★ 2.1k
3
votes
1
reply
1.2k
views
How to add prefix to samtools collate
samtools
updated 3.8 years ago by
ATpoint
84k • written 3.8 years ago by
MAPK
★ 2.1k
2
votes
8
replies
2.5k
views
How to select values based on specific condition from the matrix in R
R
updated 20 months ago by
Ram
44k • written 9.2 years ago by
MAPK
★ 2.1k
11
votes
14
replies
2.6k
views
Split paired end fastq per lane from a bam file
fastq
bam
3.8 years ago by
MAPK
★ 2.1k
0
votes
1
reply
1.0k
views
Picard's AddOrReplaceReadGroups gives invalid argument error
picard
addreplacereadgroups
updated 3.8 years ago by
a.alnawfal.1992
▴ 350 • written 3.8 years ago by
MAPK
★ 2.1k
5
votes
22
replies
6.5k
views
How to assign read groups to bam files?
BAM
3.8 years ago by
MAPK
★ 2.1k
0
votes
0
replies
3.1k
views
Trinity-v2.5.1 assembly generating bowtie 2 error
rnaseq
trinity
updated 3.8 years ago by
Biostar
20 • written 6.8 years ago by
MAPK
★ 2.1k
4
votes
2
replies
1.4k
views
BWA alignment generating errors
BWA
alignment
3.9 years ago by
MAPK
★ 2.1k
0
votes
2
replies
1.6k
views
Extract SRA reads per RG using fasterq-dump
SRA
fasterq-dump
dbGAP
3.9 years ago by
MAPK
★ 2.1k
4
votes
9
replies
2.0k
views
Revert bam to fastq
sam
bam
updated 3.9 years ago by
h.mon
35k • written 3.9 years ago by
MAPK
★ 2.1k
3
votes
8
replies
3.1k
views
Extract bed regions from CRAM files
BAM
CRAM
4.0 years ago by
MAPK
★ 2.1k
0
votes
1
reply
1.1k
views
SRA to paired fastq per read group
sra
NGS
updated 4.0 years ago by
GenoMax
145k • written 4.0 years ago by
MAPK
★ 2.1k
6
votes
4
replies
2.2k
views
How to create custom docker image to download bam files from SRA
docker
updated 13 months ago by
1769mkc
★ 1.2k • written 4.0 years ago by
MAPK
★ 2.1k
3
votes
3
replies
3.7k
views
Plink --merge-list generating error
plink
updated 4.0 years ago by
Sam
★ 4.8k • written 4.0 years ago by
MAPK
★ 2.1k
0
votes
3
replies
1.4k
views
How to calculate maf for a variant for case and control
MAF
genetics
variant
4.1 years ago by
MAPK
★ 2.1k
2
votes
2
replies
1.2k
views
Dealing with GATK illegal character
gatk
4.1 years ago by
MAPK
★ 2.1k
4
votes
5
replies
1.4k
views
How to set sleep in GNU parallel in a esearch/efetch script
sra
ncbi
programming
shell
updated 4.1 years ago by
ole.tange
★ 4.4k • written 4.1 years ago by
MAPK
★ 2.1k
0
votes
2
replies
1.1k
views
Understanding filters used in plink
plink
updated 4.1 years ago by
h.mon
35k • written 4.1 years ago by
MAPK
★ 2.1k
3
votes
10
replies
3.9k
views
8 follow
Phylogenetic analysis for large size fasta sequences
phylogenetics
updated 3.4 years ago by
Shri hari
▴ 40 • written 6.3 years ago by
MAPK
★ 2.1k
2
votes
2
replies
1.8k
views
GATK version differences
GATK
4.1 years ago by
MAPK
★ 2.1k
1
vote
1
reply
3.5k
views
Converting Variant ID to RsID in batch
SNP
rsID
4.1 years ago by
MAPK
★ 2.1k
3
votes
1
reply
1.4k
views
VEP output and protein change
VEP
VCF
updated 4.2 years ago by
Ram
44k • written 4.2 years ago by
MAPK
★ 2.1k
2
votes
1
reply
1.3k
views
How to combining VEP and VCF in one file
vcf
vep
updated 4.2 years ago by
Pierre Lindenbaum
163k • written 4.2 years ago by
MAPK
★ 2.1k
2
votes
3
replies
1.0k
views
Intersect exome region from whole genome gvcf
gatk
GenomicsDBImport
4.2 years ago by
MAPK
★ 2.1k
1
vote
2
replies
3.7k
views
GATK GenomicsDBImport intervals
GATK
gvcf
4.2 years ago by
MAPK
★ 2.1k
0
votes
0
replies
487
views
Mismatch table from pariwise sequence alignment
alignment
4.4 years ago by
MAPK
★ 2.1k
9
votes
3
replies
1.2k
views
How to cite datasets downloaded from Ensembl?
Citation
Ensembl
updated 4.5 years ago by
Astrid_Ensembl
▴ 330 • written 4.5 years ago by
MAPK
★ 2.1k
0
votes
2
replies
1.3k
views
Cross assembly of metagenomics
RNA-Seq
updated 4.5 years ago by
onestop_data
▴ 330 • written 5.5 years ago by
MAPK
★ 2.1k
4
votes
6
replies
7.3k
views
How to extract chrX, chrY and chrM from a vcf file?
VCF
updated 4.5 years ago by
yiqiangz
▴ 10 • written 8.0 years ago by
MAPK
★ 2.1k
2
votes
2
replies
1.2k
views
GFF file for soybean RNAseq analysis
RNA-Seq
updated 4.6 years ago by
Brice Sarver
★ 3.8k • written 4.6 years ago by
MAPK
★ 2.1k
8
votes
9
replies
9.6k
views
Translate Dna To Protein Using Transeq
dna
updated 4.6 years ago by
Biostar
20 • written 10.4 years ago by
MAPK
★ 2.1k
4
votes
3
replies
1.2k
views
How to decide on a reasonable title for a bioinformatics talk
interview
career
updated 17 months ago by
Ram
44k • written 4.7 years ago by
MAPK
★ 2.1k
5
votes
3
replies
3.8k
views
IBD calculation with Plink
Plink
IBD
updated 4.8 years ago by
chrchang523
11k • written 4.8 years ago by
MAPK
★ 2.1k
1
vote
1
reply
2.6k
views
Marker vs SNPs vs Biomarker
genotype
SNPs
4.9 years ago by
MAPK
★ 2.1k
5
votes
7
replies
4.7k
views
How do I find out the adaptor sequences for SRA data?
adaptor
sra
updated 5.0 years ago by
hermidalc
▴ 60 • written 5.2 years ago by
MAPK
★ 2.1k
2
votes
2
replies
981
views
How to find virus sequence with no accession information?
genome
HEV71
updated 5.2 years ago by
GenoMax
145k • written 5.2 years ago by
MAPK
★ 2.1k
0
votes
1
reply
2.0k
views
log4perl error for RGAugury.pl tool
Rgenes
updated 5.3 years ago by
knarasimhan
• 0 • written 6.2 years ago by
MAPK
★ 2.1k
15
votes
1
reply
9.9k
views
What are contig, singleton read and discordant mate pairs?
terminology
updated 2.1 years ago by
Ram
44k • written 8.6 years ago by
MAPK
★ 2.1k
4
votes
6
replies
2.9k
views
How do I make this perl script work to fetch sequences from NCBI using gene symbols?
perl
eutils
updated 5.4 years ago by
josev.die
▴ 70 • written 5.9 years ago by
MAPK
★ 2.1k
1
vote
1
reply
1.9k
views
What is the use of PCA in ethnicity correction
pca
updated 5.4 years ago by
Biostar
20 • written 8.5 years ago by
MAPK
★ 2.1k
1
vote
2
replies
1.2k
views
Submitting R package in Bioconductor with Plink and vcftools Dependencies
R
bioconductor
5.4 years ago by
MAPK
★ 2.1k
238 results • Page
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