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1,000 results • Page
4 of 20
Sort: Votes
Rank
Views
Votes
Replies
4
votes
12
replies
3.5k
views
How to read VCF (v4.1) file? (student project) (samtools version 0.1.19)
variant-calling
samtools
VCF
BCF
updated 5 weeks ago by
Ram
43k • written 5.6 years ago by
c.clarido
▴ 110
4
votes
2
replies
253
views
Trying to write bwa mem -> samtools view -> samtools sort loop
bwa
samtools
mapping
genome
updated 4 weeks ago by
Pierre Lindenbaum
161k • written 4 weeks ago by
Lee
• 0
4
votes
1
reply
635
views
How to interpret Clustree results?
scRNA
clustering
clustree
updated 8 months ago by
LChart
3.9k • written 8 months ago by
leranwangcs
▴ 120
4
votes
2
replies
480
views
KEGG DATABASE
DATABASE
KEGG
updated 5 months ago by
jv
★ 1.8k • written 5 months ago by
Sijjil
• 0
4
votes
3
replies
606
views
Identifying enhancers that regulate certain genes
enhancers
updated 9 months ago by
rfran010
▴ 900 • written 9 months ago by
Rozita
▴ 40
4
votes
6
replies
855
views
bwa mem hangs after a few thousand reads
bwa
alignment
variant-calling
bwa-mem
updated 4 weeks ago by
Ram
43k • written 5 months ago by
cee28
▴ 30
4
votes
3
replies
321
views
Should you remove PCR duplicates for kmer counting?
kmer
dedup
duplicates
updated 12 weeks ago by
Darked89
4.6k • written 12 weeks ago by
ebaldwin
▴ 30
4
votes
13
replies
1.0k
views
Mapping FASTQ files of scRNA-seq to reference genome
star
EBI
cellranger
scRNA-seq
SRA
updated 4 months ago by
Ram
43k • written 4 months ago by
Researcher
▴ 20
4
votes
2
replies
578
views
Can I still remove ambient RNA if I do not have raw barcode-gene matrix?
SoupX
6 months ago by
malonzm1
▴ 20
4
votes
9
replies
1.2k
views
Snakemake issue with wrappers
Python
Snakemake
6 months ago by
Begonia_pavonina
▴ 150
4
votes
8
replies
2.0k
views
How to extract promoter sequences from a plant draft genome?
promoter
genome
updated 11 months ago by
Ram
43k • written 4.6 years ago by
Kumar
▴ 120
4
votes
1
reply
576
views
How to Load a Molecular Signature Database into clusterProfiler gseGO?
ClusterProfiler
RNA-seq
GSEA
updated 9 months ago by
Nitin Narwade
★ 1.6k • written 9 months ago by
Manuel Sokolov Ravasqueira
▴ 100
4
votes
7
replies
811
views
Help with weighted nearest neighbor analysis
seurat
single-cell
8 months ago by
Chris
▴ 260
4
votes
6
replies
647
views
Unexpected separation of RNA-seq samples on PCA plot
depletion
PCA
rRNA
plot
RNA-seq
5 months ago by
Tihana
▴ 10
4
votes
5
replies
1.1k
views
VEP run with --af_gnomadg refuses to provide allele frequencies for extremely rare variants
vep
gnomad
updated 8 months ago by
Louisse_Ensembl
▴ 60 • written 9 months ago by
Jeremy Leipzig
22k
4
votes
5
replies
397
views
Filter out miRNA from ncRNA dataset
bowtie
bowtie2
miRNA
filtering
ncRNA
updated 10 weeks ago by
ATpoint
82k • written 10 weeks ago by
binaryCode
▴ 10
4
votes
3
replies
608
views
Over Representation analysis altered pathways in common between comparisons plot
R
Visualization
DGE
ORA
updated 6 months ago by
Basti
★ 2.0k • written 6 months ago by
Manuel
▴ 10
4
votes
7
replies
1.5k
views
.bed files from sequencing platform not containing intervals of "alt", "random" haplotypes. How do I perform coverage and haplotype caller?
exome
.bed
haplotypes
HG38
coverage
updated 9 months ago by
GenoMax
142k • written 9 months ago by
LeandroF.
• 0
4
votes
5
replies
1.4k
views
Distributed / parallel computing in bioinformatics
distributed-computing
updated 11 months ago by
Ram
43k • written 6.9 years ago by
CY
▴ 750
4
votes
7
replies
779
views
Alternative for grep in a for loop
linux
updated 6 months ago by
Ram
43k • written 6 months ago by
Prangan
▴ 20
4
votes
7
replies
590
views
DESeq2 Multifactor Design
RNA-seq
DESeq2
updated 21 days ago by
Ram
43k • written 22 days ago by
AHerik
▴ 20
4
votes
4
replies
621
views
I cannot install anaconda on ubuntu 22.04
ubuntu
anaconda
Conda
updated 9 months ago by
Ram
43k • written 9 months ago by
Omar
▴ 10
4
votes
6
replies
354
views
Protein loops
protein
Loop
7 weeks ago by
Curious
▴ 10
4
votes
3
replies
709
views
How to interpret output of PLINK association test (--assoc)
assoc
updated 8 months ago by
zx8754
11k • written 8 months ago by
karthivalarmathi99
▴ 10
3
votes
5
replies
771
views
CHIPSEQ : Cut AND Run , DiffBind Parameters
Cut-Run
DiffBind
ChIP-seq
updated 5 months ago by
Rory Stark
★ 2.0k • written 5 months ago by
DINESHR
▴ 10
3
votes
8
replies
639
views
Huge decrease of BUS records using bustools
single-cell
bustools
10X
9 weeks ago by
julien.wollbrett
• 0
3
votes
2
replies
284
views
Inject haplotypes into rGFA?
Pangenome
12 weeks ago by
agd27
▴ 130
3
votes
9
replies
1.7k
views
How to get negative training set if I don't know what constitutes negative?
machine-learning
dna-sequence
blast
updated 6 months ago by
Ram
43k • written 7.6 years ago by
nafizh
• 0
3
votes
4
replies
1.0k
views
R package DESeq2 in R 3.5.1
R
updated 11 months ago by
Ram
43k • written 16 months ago by
sehriban.buyukkilic
▴ 10
3
votes
6
replies
4.1k
views
how do Differential gene expression analysis by Salmon output
differential-gene-expression
Salmon
updated 26 days ago by
Ram
43k • written 5.6 years ago by
lkianmehr
▴ 100
3
votes
1
reply
278
views
how to change the gene header names in a fasta file?
fasta
bioawk
awk
seqkit
updated 23 days ago by
Ram
43k • written 23 days ago by
rj.rezwan
• 0
3
votes
3
replies
460
views
I can't add VAF from population for all of my variants from VCF file
genomics
vcf
gnomad
updated 7 weeks ago by
Ram
43k • written 7 weeks ago by
Samuel
▴ 20
3
votes
14
replies
1.2k
views
How to extract specific region from multiple bam files and merge the outputs into single bam?
bam
rna-seq
updated 6 months ago by
GenoMax
142k • written 6 months ago by
Vasu
▴ 770
3
votes
7
replies
344
views
FastQC Quality per tile and per sequence behaving strange after using Cutadapt
fastqc
cutadapt
illumina
tile
paired-end
6 days ago by
salias
• 0
3
votes
7
replies
6.4k
views
Human reference files in HG38 GATK resource bundle
VCF
updated 11 months ago by
DareDevil
★ 4.3k • written 6.3 years ago by
win
▴ 970
3
votes
7
replies
513
views
How does kallisto handle multi mapped reads?
kallisto
updated 10 weeks ago by
dsull
★ 6.0k • written 10 weeks ago by
bioinfo
▴ 150
3
votes
4
replies
657
views
Weighted analysis
RNA-seq
7 months ago by
Peter
• 0
3
votes
5
replies
1.1k
views
I have a pair of read files where each is a mixed pool of reads from the Linked-read technology and Illumina short-read technology. Any suggestion on…
NGS
clc-genomics
illumina
WGS
updated 6 months ago by
Ram
43k • written 6 months ago by
Vijith
▴ 30
3
votes
8
replies
6.6k
views
7 follow
GATK genomicsDBimport intervals for WGS
gatk
genomicsdbimport
updated 2 days ago by
Sd
• 0 • written 5.1 years ago by
Nicolas Rosewick
11k
3
votes
6
replies
976
views
Embryo transcriptome
database
transcriptome
SRA
updated 11 months ago by
Basti
★ 2.0k • written 11 months ago by
firefox91
• 0
3
votes
4
replies
648
views
Plotting a pvalue threshold for an FDR corrected pvalue <.05 when thats not present in R
FDR
volcano
plotting
R
plot
updated 5 months ago by
Nitin Narwade
★ 1.6k • written 5 months ago by
RNAseqer
▴ 270
3
votes
5
replies
758
views
STAR error with a loop
STAR
RNA
transcriptomics
updated 11 months ago by
Ram
43k • written 17 months ago by
luzglongoria
▴ 50
3
votes
7
replies
500
views
Snakemake rule that runs an assessment for once after completing other previous rules
snakemake
8 weeks ago by
Fadlilah
▴ 10
3
votes
1
reply
553
views
chromosome location to gene name and aa change
variant-annotation
11 months ago by
Zi
• 0
3
votes
5
replies
542
views
How to assess the quality of the assembly of unmapped reads ?
Pangenome
Iterative-assembly
3 months ago by
Sony
▴ 10
3
votes
9
replies
694
views
STARsolo seg fault without readMapNumber flag
STAR
RNA-seq
STARsolo
Velocyto
updated 6 months ago by
Ram
43k • written 6 months ago by
rbronste
▴ 420
3
votes
7
replies
3.2k
views
vcf filter for FORMAT argument (DP/GQ/GQX > 30) multiple (380) vcf file
vcffilter
vcftools
sequencing
updated 10 months ago by
Ram
43k • written 4.1 years ago by
IndyDNA
▴ 10
3
votes
6
replies
1.1k
views
Very different QUAL scores on VCFs of same sample using different methods
deepvariant
clara-parabricks
haplotypecaller
vcf
10 months ago by
Victor
▴ 10
3
votes
6
replies
1.1k
views
6 follow
calculate nucleotide diversity from whole-genome-sequence data for individual genes
genomics
nucleotide_diversity
vcf
updated 12 weeks ago by
sapuizait
▴ 10 • written 5 months ago by
J
▴ 10
3
votes
3
replies
516
views
Free/open source 23andme-like analysis
SNPs
genomics
NGS
VCF
updated 15 days ago by
swbarnes2
14k • written 16 days ago by
noodle
▴ 580
1,000 results • Page
4 of 20
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