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Showing :
questions
2
votes
2
replies
259
views
What is the relationship between Illumina P5 P7, universal adapters, and TruSeq Adapter Index 7?
fastqc
NGS
14 days ago by
octpus616
▴ 100
1
vote
1
reply
207
views
How to Annotating Human Genomic Variants for Disease Associations?
R
variant-annotation
GWAS
updated 11 weeks ago by
Ram
43k • written 11 weeks ago by
octpus616
▴ 100
0
votes
2
replies
381
views
ATCC cell line source
cell-line
NGS
ATCC
3 months ago by
octpus616
▴ 100
5
votes
7
replies
737
views
How the first sequencing template removed in pair end sequencing
NGS
RNA-seq
WGS
sequence
updated 6 months ago by
GenoMax
141k • written 6 months ago by
octpus616
▴ 100
0
votes
0
replies
271
views
how simply mutation annotation in R?
annotation
RNA-seq
Bioconductor
7 months ago by
octpus616
▴ 100
0
votes
2
replies
746
views
STAR mapping two pass mode for multiple samples with split steps or one step ?
STAR
RNA-seq
7 months ago by
octpus616
▴ 100
7
votes
6
replies
910
views
Best practices scRNA-seq guide for beginer
scRNA-seq
eBook
7 months ago by
octpus616
▴ 100
0
votes
0
replies
318
views
Make a variation record dict from vcf by pysam quickly
pysam
python
vcf
8 months ago by
octpus616
▴ 100
2
votes
4
replies
718
views
How to convert dnsnp in UCSC to gtf
UCSC
dnsnp
gtf
8 months ago by
octpus616
▴ 100
2
votes
1
reply
517
views
bedtools random without strand and no overlap
bedtools
genome
bed
updated 10 months ago by
ATpoint
81k • written 10 months ago by
octpus616
▴ 100
1
vote
2
replies
537
views
Why is NA18498 sample missing from 1000 genome GRCh38 vcf file?
NGS
vcf
1000
1kg
genome
11 months ago by
octpus616
▴ 100
0
votes
0
replies
357
views
rtracklayer import.chain not accpect chain file
R
rtracklayer
liftOver
11 months ago by
octpus616
▴ 100
6
votes
1
reply
465
views
what is IGV visualization lighter color variants stand for
visualization
vcf
IGV
updated 12 months ago by
Jorge Amigo
14k • written 12 months ago by
octpus616
▴ 100
0
votes
2
replies
923
views
Calculation method of RMSMappingQuality
NGS
bam
samtools
vcf
13 months ago by
octpus616
▴ 100
0
votes
0
replies
347
views
How to shift the position of multiallelic variants for phasing analysis with SHAPEIT2?
vcf
bcftools
shapeit2
phase
NGS
updated 10 months ago by
Ram
43k • written 13 months ago by
octpus616
▴ 100
0
votes
0
replies
340
views
Get RMS MQ for specific POS
vcf
bam
MQ
13 months ago by
octpus616
▴ 100
2
votes
1
reply
664
views
bcftools merge without multiallelic sites
NGS
bcftools
vcf
updated 13 months ago by
raphael.B
▴ 520 • written 13 months ago by
octpus616
▴ 100
3
votes
7
replies
1.6k
views
Does running samtools sort in parallel result in unexpected output due to temporary file conflicts?
NGS
samtools
bam
updated 10 months ago by
Ram
43k • written 13 months ago by
octpus616
▴ 100
0
votes
0
replies
488
views
Annotate a series of genomic intervals using R as detailed as possible
bed
bioconductor
annotation
R
14 months ago by
octpus616
▴ 100
0
votes
0
replies
416
views
What is the different bewteen ucsc simple repeat and tandem repeat
reference
USCS
annotation
hg38
14 months ago by
octpus616
▴ 100
2
votes
2
replies
1.4k
views
samtools calmd and original base quality
NGS
bam
samtools
14 months ago by
octpus616
▴ 100
0
votes
2
replies
935
views
GATK haplotypeCaller output MQ in vcf for non variant sites
vcf
MQ
GATK
NGS
15 months ago by
octpus616
▴ 100
1
vote
6
replies
1.2k
views
Get length of the alignment from bam file with shell
NGS
sam
pysam
samtools
bam
updated 15 months ago by
cmdcolin
★ 3.8k • written 15 months ago by
octpus616
▴ 100
0
votes
7
replies
1.7k
views
Samtools view -e not work
NGS
bam
sam
samtools
updated 15 months ago by
Ram
43k • written 16 months ago by
octpus616
▴ 100
4
votes
6
replies
1.7k
views
How to determine the encoding method of quality score in a fastaq file?
fastq
NGS
samtools
bwa
16 months ago by
octpus616
▴ 100
0
votes
0
replies
482
views
How to infer ancestral states from Ensembl EPO ancestral data
states
EPO
alleles
ancestral
18 months ago by
octpus616
▴ 100
0
votes
2
replies
572
views
substract granges and keep extra columns
bedtools
Granges
updated 10 months ago by
Ram
43k • written 20 months ago by
octpus616
▴ 100
3
votes
4
replies
1.8k
views
Why divide by the root n when constructing the u statistic
t-test
statictic
offtopic
u-test
updated 16 months ago by
Ram
43k • written 23 months ago by
octpus616
▴ 100
0
votes
2
replies
1.7k
views
[pysam] How to find both both primary and supplementary read?
NGS
pysam
bam
python
SAM
2.7 years ago by
octpus616
▴ 100
3
votes
7
replies
1.8k
views
How to infer segment direction from vcf
SV
vcf
NGS
2.7 years ago by
octpus616
▴ 100
0
votes
0
replies
586
views
How to understrand the library complexity
ATAC-seq
DNase-seq
NGS
2.8 years ago by
octpus616
▴ 100
4
votes
5
replies
997
views
Are there any statistical method is suitable to solve
z-test
updated 16 months ago by
Ram
43k • written 2.8 years ago by
octpus616
▴ 100
1
vote
3
replies
791
views
Is it possible to convert bam files with different parameters?
BWA
NGS
WGS
updated 3.4 years ago by
ATpoint
81k • written 3.4 years ago by
octpus616
▴ 100
0
votes
0
replies
684
views
Are there some ways to visualize CNVnator output
next-gen
genome
gene
4.0 years ago by
octpus616
▴ 100
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