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121,404 results • Page
428 of 2429
Sort: Rank
Rank
Views
Votes
Replies
0
votes
0
replies
560
views
How to find clinical information from cBioPortal?
cbioportal
TCGA
3.1 years ago by
melissachua90
▴ 70
2
votes
4
replies
2.0k
views
Running Beagle on a VCF with 1 sample
imputation
genome
beagle
updated 18 months ago by
LuciaNhu
▴ 10 • written 3.1 years ago by
phosphorus
▴ 20
0
votes
3
replies
2.5k
views
Interpreting theta value
theta
statistics
popgen
angsd
updated 3.1 years ago by
Alice
• 0 • written 4.6 years ago by
yolek64754
▴ 30
0
votes
0
replies
1.1k
views
Job:
Bioinformatician (Completing the Plant Tree of Life Project)
biodiversity
genomics
phylogenomics
updated 2.4 years ago by
Ram
45k • written 3.1 years ago by
William
• 0
3
votes
1
reply
1.9k
views
Breakdancer : bam2cfg.pl doesn't work with merged bam
breakdancer
updated 3.1 years ago by
huirusun0305
• 0 • written 7.4 years ago by
Rox
★ 1.4k
2
votes
1
reply
814
views
Is it possible to find the mutation in RNA-seq reads?
RNA-seq
mapping
clip-seq
updated 3.1 years ago by
Carlo Yague
9.0k • written 3.1 years ago by
PK
▴ 130
3
votes
3
replies
905
views
From wet lab microbiology to metagenomics/microbiomics
metagenomics
microbiomics
microbiology
updated 3.1 years ago by
Joe
22k • written 3.1 years ago by
Raz
• 0
28
votes
7
replies
12k
views
9 follow
Add contig lenght to VCF header in a robust way
vcf
updated 6 months ago by
Lhl
▴ 760 • written 9.0 years ago by
William
★ 5.3k
0
votes
0
replies
790
views
Sex inconsistencies in Plink - Affymetrix array
QC
Imputation
Genotyping
Plink
GWAS
3.1 years ago by
Mari
• 0
7
votes
12
replies
2.6k
views
6 follow
Running bash script from PATH automatically logging into the server
bash
fastqc
linux
updated 3.1 years ago by
Ram
45k • written 3.1 years ago by
margo
▴ 40
0
votes
0
replies
452
views
Variant Gene from Exome database
Cancer
SNVs
Exome
3.1 years ago by
m610110001
• 0
0
votes
4
replies
1.1k
views
Considering two and more variation in polyploidy
Population
SNP
Variant
genomic
Calling
3.1 years ago by
young_bioinformatician
▴ 240
0
votes
0
replies
378
views
Is it possible to extract exons only from UCSC when using DAS?
UCSC
DAS
3.1 years ago by
antonhomilius
▴ 10
0
votes
1
reply
698
views
Which DeSeq2 study design to use when there is data from controls and two different disease states (moderate and high) and stage level (1,2,3)? And h…
design
Bioconductor
R
Study
DeSeq2
updated 3.1 years ago by
rpolicastro
13k • written 3.1 years ago by
salman_96
▴ 70
4
votes
5
replies
7.1k
views
remove/replace unwanted character from a column in R
gsub
R
stringr
updated 3.1 years ago by
Basti
★ 2.1k • written 3.1 years ago by
mthm
▴ 80
0
votes
1
reply
530
views
Does the number of RNA reads per cell obtained from the 10X scRNA experiment depend on amount of mRNA in given cell?
NGS
10X
Single-cell
Sequencing
updated 3.1 years ago by
rpolicastro
13k • written 3.1 years ago by
Karol
• 0
0
votes
0
replies
438
views
How to generate one Heatmap under the loop
Pearson
Scipy
Python
Correlation
Heatmap
3.1 years ago by
pragatigga97
• 0
0
votes
3
replies
965
views
Doubts with mash output
mash
gwas
3.1 years ago by
SushiRoll
▴ 140
2
votes
3
replies
1.4k
views
sniffles process cannot end with warnings
SV
calling
sniffles
updated 3.1 years ago by
Matthias Zepper
5.1k • written 3.1 years ago by
Maxine
▴ 50
0
votes
1
reply
923
views
Is it ok to implement Cufflinks/Cuffdiff with the STAR aligned files for the differential gene expression analysis?
Differential-expression
Cufflinks
RNA-seq
STAR
Tophat
updated 3.0 years ago by
Ram
45k • written 3.1 years ago by
Meeran
▴ 10
3
votes
2
replies
700
views
Read depths on whole genome (WGS)
samtools
wgs
read-depth
updated 2.0 years ago by
Ram
45k • written 3.1 years ago by
Jean-Charles
• 0
0
votes
0
replies
639
views
How many genes are used by DAVID as the default homo sapiens background?
fisher
DAVID
enrichment
background
cancer
3.1 years ago by
ConvolutedGenome
▴ 60
5
votes
3
replies
1.0k
views
How to use Ingenuity Pathway Analysis?
Ingenuity
Pathway
Analysis
3.1 years ago by
Dito Anurogo
• 0
0
votes
1
reply
598
views
vcfsample diff how to execute
vcfsamplediff
updated 3.1 years ago by
GenoMax
152k • written 3.1 years ago by
DrN
• 0
16
votes
3
replies
11k
views
Tool:
Vcflib Documentation
vcf
updated 2.0 years ago by
Ram
45k • written 12.2 years ago by
Erik Garrison
★ 2.4k
0
votes
4
replies
1.1k
views
Biologically what does it mean when an exon has higher expression?
expression
rnaseq
gene
updated 3.1 years ago by
rpolicastro
13k • written 3.1 years ago by
simplitia
▴ 130
0
votes
1
reply
794
views
Find Allele frequencies
snp
allele
frequencies
variants
vcf
updated 3.1 years ago by
Jeremy
▴ 930 • written 3.2 years ago by
Giulia.cosenza
▴ 110
3
votes
2
replies
1.9k
views
Bacteria taxonomy ID at species level NCBI
bacteria
protein
blast
ncbi
taxonomy
updated 3.1 years ago by
shenwei356
8.7k • written 3.1 years ago by
miguel.fernandezm
• 0
2
votes
2
replies
1.1k
views
Easiest way to run BLAST, specifically blastn, against multiple databases
blast
blastn
3.1 years ago by
DavidStreid
▴ 110
0
votes
2
replies
858
views
different pileups between sorted.bam file and bigwig file
bigwig
deeptools
IGV
updated 2.0 years ago by
Ram
45k • written 3.1 years ago by
bioyas
▴ 20
2
votes
4
replies
1.8k
views
Accessing COSMIC database via Python script
cosmic
VEP
python
annotation
variant
3.1 years ago by
maria_giulia_carta
• 0
0
votes
2
replies
783
views
Unique mutations between VCF files
VCF
updated 2.3 years ago by
Ram
45k • written 3.1 years ago by
kshaffman
• 0
0
votes
0
replies
492
views
Converting eggNOG IDs to EC numbers
Numbers
EC
eggNOG
3.1 years ago by
atapa
• 0
0
votes
0
replies
562
views
pysam fetch alignments corresponding to a taxid
pysam
samtools
3.1 years ago by
pixie@bioinfo
★ 1.5k
1
vote
0
replies
525
views
Correcting homopolymer lengths with RNAseq data
rna-seq
polishing
homopolymer
pilon
3.1 years ago by
annil
▴ 10
0
votes
0
replies
468
views
Empty droplets- Knee/inflection cutoff python module
QC
kneeplot
dropseq
3.1 years ago by
akilabioinfo
▴ 10
0
votes
2
replies
1.6k
views
BLAST ERROR Too many positional arguments (1)
blastp
blast
updated 2.1 years ago by
Ram
45k • written 3.1 years ago by
Paula
▴ 60
6
votes
6
replies
1.2k
views
How to modify fasta file headers
fasta
updated 3.1 years ago by
cpad0112
21k • written 3.1 years ago by
Paula
▴ 60
1
vote
6
replies
1.6k
views
Forum:
Bioinformatics Software Developer job interview steps and what to expect?
interview
software-development
updated 3.0 years ago by
Ram
45k • written 3.1 years ago by
d
• 0
0
votes
1
reply
754
views
RunInfo.xml FlowcellLayout section meaning of FlowcellSide
novaseq
illumina
updated 3.1 years ago by
GenoMax
152k • written 3.1 years ago by
b10hazard
• 0
0
votes
2
replies
734
views
Extracting unconventionally spliced transcripts from RNASeq dataset
RNASeq
3.1 years ago by
VenGeno
▴ 100
3
votes
4
replies
740
views
RNA-seq: Change conditions for comparison
RNA-seq
updated 3.1 years ago by
Ram
45k • written 3.1 years ago by
abhay.kanodia
▴ 10
0
votes
8
replies
2.4k
views
Fastp
Fastp
updated 12 weeks ago by
GenoMax
152k • written 3.1 years ago by
nishimalhotra2612
▴ 50
0
votes
0
replies
409
views
KOBAS - Soybean (Glycine max)
GO
KOBAS
Gene
Enrichment
Annotation
3.1 years ago by
GlycineMax
▴ 10
0
votes
2
replies
1.5k
views
g.vcf file with different FORMAT (GT:AD:DP:GQ:PL:SB vs GT:DP:GQ:MIN_DP:PL)
vcf
3.1 years ago by
User000
▴ 750
3
votes
4
replies
1.3k
views
difficulty filtering vcf file with vcftools
vcf
vcftools
updated 2.0 years ago by
Ram
45k • written 3.1 years ago by
Phoebe Magdy
• 0
2
votes
2
replies
914
views
Number of SNPs included in the PRS calculation (PRSice)
SNP
PRSice
PRS
3.1 years ago by
hello_genome
• 0
5
votes
6
replies
2.0k
views
DiffBind analysis report gives me two different outputs depending on when I apply a filtering threshold [eg: P-value=0.05, (abs)FC=1.1]
DiffBind
updated 2.3 years ago by
Rory Stark
★ 2.1k • written 3.1 years ago by
prachejp
• 0
2
votes
2
replies
926
views
How to delete spaces from fasta file IDs
fasta
updated 3.0 years ago by
Hugo
▴ 400 • written 3.1 years ago by
Paula
▴ 60
0
votes
0
replies
554
views
News:
Online course - Developing R/Bioconductor packages for genomics
Bioconductor
R
updated 2.5 years ago by
Ram
45k • written 3.1 years ago by
Physalia-courses
★ 2.6k
121,404 results • Page
428 of 2429
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Comment: Trajectory Analysis scRNA-seq with one cell type and two developmental stages
by
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6.4k
I am not sure if there is a "best" approach to do what you want. Some comments : > let's consider them as scRNA-seq data The visium HD g…
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Sorry for my late answer! This was more of a theoretical question. I'm analyzing multiple projects, and some of them need a batch effect co…
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Dear, thanks for your answer. There's indeed a double interest, one is purely exploratory and and one more specific and that's why I'd like…
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Hello, I was interested by the same topic. Did you follow this procedure at the end? I wonder if you should have filter for neutrophil…
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Hi, Yes, if you have three patient samples that you aim to integrate, you need to merge them first. If the three patient samples are `S…
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Gene Explorer! Recently developed. Lets you see any information on any gene, lets you see pathway visualizations, export gene/protien data…
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Hi, I ultimately decided not to use Maker, but I think it works as you described. Perhaps this protocol might help: https://gist.github.com…
Comment: how to use filter_vep to filter vcf file
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yes, they are from RNAseq
Comment: how to use filter_vep to filter vcf file
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are these VCFs derived from transcripts? why would an intron be missing from a genomic VCF?
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The main issue is that there will be an inherent lack of information (due to the aforementioned 3' bias) in tagged-end data. Nonetheless, …
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