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120,158 results • Page
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ribosomeProfilingQC help
ribo-seq
10 minutes ago by
tommy
▴ 40
0
votes
1
reply
30
views
Best genome assembly tool?
unicycler
assembly
genome
spades
updated 1 hour ago by
GenoMax
148k • written 2 hours ago by
maria.alfarosegura
• 0
0
votes
5
replies
115
views
How to do allele specific expression analysis (ASE)
ASE
updated 1 hour ago by
GenoMax
148k • written 7 hours ago by
chentongouc
• 0
0
votes
0
replies
25
views
Differentially expressed genes analysis using IPA?
Differential
gene
expression
updated 2 hours ago by
GenoMax
148k • written 2 hours ago by
goyal.shiwali
▴ 20
0
votes
2
replies
49
views
FilterMutectCalls producing empty vcf file
Mutect2
WES
FilterMutectCalls
gatk
3 hours ago by
ChumBucket2024
• 0
3
votes
9
replies
133
views
File size increase after host read removal?
metagenomics
quality-control
WGS
updated 4 hours ago by
Ram
44k • written 5 hours ago by
akazen
• 0
0
votes
0
replies
45
views
Error from Using FindVariableFeatures Function in Seurat Package
FindVariableFeatures
Seurat
8 hours ago by
Binghong
▴ 20
2
votes
1
reply
94
views
What does the start in diffbind profile plot x-axis mean exactly?
DiffBind
CHiP-Seq
7 hours ago by
SpartanII
• 0
825
votes
169
replies
164k
views
110 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 4 months ago by
Biostar
3.3k • written 8.1 years ago by
Istvan Albert
102k
0
votes
1
reply
77
views
Disease-Disease Association data
gene-ontology
OMIM
disease
HPO
updated 3 hours ago by
Ram
44k • written 11 hours ago by
singhankit973
• 0
5
votes
3
replies
166
views
ChromHMM - annotation of chromatin states
state
Annoation
updated 9 hours ago by
e.r.zakiev
▴ 230 • written 21 hours ago by
Bioinformatics_16
▴ 10
3
votes
4
replies
161
views
Vcf Filtering
Vcf
Filtering
AF
updated 7 hours ago by
Pierre Lindenbaum
165k • written 14 hours ago by
Marc Ibanez
• 0
0
votes
0
replies
54
views
News:
Single-Cell RNA-Seq Data Analysis: A Practical Introduction (March 17-19, 2025 in Berlin, Germany)
transcriptomics
scRNAseq
singleCell
13 hours ago by
ecSeq Bioinformatics
• 0
0
votes
2
replies
3.7k
views
How to Clump In Plink?
PLINK
GWAS
updated 13 hours ago by
meggo
• 0 • written 2.6 years ago by
Thorerges
▴ 10
2
votes
7
replies
181
views
Adding p value above plot
p
DESeq2
value
violin
boxplot
updated 14 hours ago by
marco.barr
▴ 170 • written 14 hours ago by
a.stef.44
▴ 10
0
votes
1
reply
132
views
Use of Pval v.s. Padj Statistic in Pre-Ranked GSEA Analysis
Gene
Ontology
GSEA
RNA-Seq
updated 13 hours ago by
i.sudbery
21k • written 1 day ago by
BioTinker
• 0
0
votes
0
replies
53
views
News:
Online Course: Spatial Omics in R/Bioconductor | 19-21 May 2025
Spatial-Omics
Bioconductor
Tidyverse
Omics
15 hours ago by
Physalia-courses
★ 2.6k
0
votes
1
reply
92
views
Bionumerics installation files and tutorials after discontinuation
discontinued
Bionumerics
updated 10 hours ago by
GenoMax
148k • written 16 hours ago by
Mad104301
• 0
0
votes
0
replies
65
views
WGCNA: Can we use high power for signed network?
Powerselection
RNA-seqdata
WGCNA
Networkanalysis
17 hours ago by
Vinesh
▴ 10
1
vote
1
reply
113
views
How to trim sequences
trimming
sequencing
phylogenetics
updated 22 hours ago by
Mensur Dlakic
★ 28k • written 1 day ago by
PF
• 0
0
votes
0
replies
83
views
Job:
Postdoctoral Fellow (Quantitative Modeling Group)
Bioengineering
Computational-Biology
updated 1 day ago by
Ram
44k • written 1 day ago by
BerkeleyLab
▴ 70
0
votes
1
reply
112
views
How to download metadata for the Broad Firehose RNA-seq data?
metadata
tcga
rnaseq
updated 1 day ago by
GenoMax
148k • written 1 day ago by
mebius_band
• 0
0
votes
4
replies
343
views
Interpreting Varied Survival Times in TCGA-BRCA Data
Survival
Kaplan-Meier
TCGA
analysis
survival
curves
updated 8 hours ago by
wenbinm
▴ 40 • written 15 days ago by
Siqi
• 0
1
vote
2
replies
424
views
Web- based bioinformatics tool/s for identification of cysteine-rich proteins
cysteine
proteins
updated 1 day ago by
Mensur Dlakic
★ 28k • written 5 months ago by
lukhanyomakhabane
▴ 30
1
vote
2
replies
144
views
Reducing runtime of low-score alignments
python
pairwise-alignment
alignment
updated 17 hours ago by
Mark
★ 1.6k • written 1 day ago by
benjlishani7
• 0
5
votes
9
replies
280
views
constructing de novo assembly of plant short reads
short
reads
assembly
plants
20 hours ago by
analyst
▴ 50
0
votes
0
replies
82
views
News:
Course live online Intro Bayesian Analysis, February 17th-21st, 2025
python
bayesian
rproject
statistics
1 day ago by
Sole
• 0
3
votes
0
replies
113
views
Herald:
The Biostar Herald for Tuesday, January 21, 2025
herald
1 day ago by
Biostar
3.3k
2
votes
3
replies
182
views
Discover novel transcripts
transcriptomic
assembly
stringtie
stringtie--merge
updated 1 day ago by
lieven.sterck
15k • written 1 day ago by
Emy Alade
• 0
1
vote
2
replies
160
views
Creating pangenome graphs using vcf files?
pangenome
17 hours ago by
Uveyik
▴ 60
0
votes
0
replies
116
views
News:
Computational Pangenomics course
Pangenomics
Pangenome-Graphs
1 day ago by
Physalia-courses
★ 2.6k
2
votes
3
replies
187
views
gene annotation tool recommendations for oomycetes
oomycetes
annotation
updated 1 day ago by
GenoMax
148k • written 1 day ago by
colindaven
7.0k
19
votes
10
replies
633
views
7 follow
STAR aligner - Is this still maintained?
STAR
aligner
rnaseq
1 day ago by
Joshi
• 0
1
vote
4
replies
668
views
Does anyone know how to transform the following transcript ID's from TCGA isoform data
UCSC
isoform
TCGA
updated 1 day ago by
Zhenyu Zhang
★ 1.2k • written 26 days ago by
B.N.
▴ 10
0
votes
0
replies
98
views
eQTL Analysis for Structural Variants (SV) – Seeking Relevant Software
eQTL
SV
1 day ago by
chiyong4783
• 0
0
votes
1
reply
136
views
SRA fastq modify by 10x valid fastq
fastq
updated 2 days ago by
GenoMax
148k • written 2 days ago by
wyuan37
• 0
0
votes
1
reply
131
views
Building pangenome graphs in minigraph-cactus using vcf?
pangenome
vcf
cactus
updated 1 day ago by
Mark
★ 1.6k • written 2 days ago by
Uveyik
▴ 60
0
votes
2
replies
200
views
RSEM and STAR
STAR
RNASeq
RSEM
2 days ago by
rajdeepboral00
▴ 20
0
votes
0
replies
118
views
Interpretaion of tensorQTL output for ieQTL analysis
TensorQTL
IeQTL
Beta-Values
updated 2 days ago by
Ram
44k • written 2 days ago by
cool.aditya286
• 0
4
votes
10
replies
4.6k
views
6 follow
BLAST Database error: Database memory map file error
makeblastdb
updated 2 days ago by
GenoMax
148k • written 4 months ago by
Martina
• 0
1
vote
4
replies
289
views
How to compare gene prediction
gene-prediction
updated 12 hours ago by
shelkmike
★ 1.4k • written 2 days ago by
Acervo
• 0
0
votes
0
replies
131
views
ArchR extending gene activity till nearest promoter
ArchR
addGeneScoreMat
2 days ago by
Bastien Hervé
6.1k
0
votes
0
replies
139
views
Heritability
greml
heritability
2 days ago by
am29
▴ 50
0
votes
1
reply
174
views
Transcriptome Reconstruction for Transcript Discovery
taco
stringtie
updated 1 day ago by
michael.ante
★ 3.9k • written 2 days ago by
Emy Alade
• 0
2
votes
2
replies
218
views
Having trouble running Desktop version of Pse-in-One
Pse-in-One
DNA
1 day ago by
Jimmy
▴ 30
0
votes
0
replies
135
views
Comparison of different gene catalog abundance
assembly
catalog
metagenome
illumina
gene
2 days ago by
young_bioinformatician
▴ 240
0
votes
1
reply
601
views
Nothing happens when running GATK VCF Validate Variants. Output warning: processed 0 (zero) total variants
GATK
VCF
snp
ValidateVariants
updated 2 days ago by
Pierre Lindenbaum
165k • written 3 days ago by
maikejet
• 0
0
votes
1
reply
221
views
Annotate GWAS result gene function from GFF file
gwas
gff
gff3
annotation
updated 3 days ago by
lieven.sterck
15k • written 3 days ago by
alnus
• 0
0
votes
0
replies
157
views
WGCNA sample-data preprocessing order
gene-expression
wcgna
microarray
network
data-preprocessing
3 days ago by
Reuben
• 0
6
votes
3
replies
1.3k
views
drug sensitivity prediction
deseq2
oncopredict
R
drug
updated 4 days ago by
Luka
• 0 • written 2.2 years ago by
luffy
▴ 130
120,158 results • Page
1 of 2404
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Answer: ChromHMM - annotation of chromatin states
A: What Are The Most Influential Bioinformatics/Computational Biology Papers Of 201
Answer: File size increase after host read removal?
Answer: File size increase after host read removal?
Comment: File size increase after host read removal?
Comment: What does diffbind profile plot show exactly?
ChromHMM - annotation of chromatin states
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Recent Replies
Comment: Best genome assembly tool?
by
GenoMax
148k
> I am really having trouble with Unicycler and SPAdes In what way? What kind of data are you working with?
Comment: How to do allele specific expression analysis (ASE)
by
GenoMax
148k
> how can I obtain the VCF files containing the SNPs that distinguish two species? Based on the original question you are not working wi…
Comment: How to do allele specific expression analysis (ASE)
by
dsull
★ 7.2k
You usually download it somewhere. I don’t know what species you are working with, so search around.
Comment: How to do allele specific expression analysis (ASE)
by
chentongouc
• 0
Hello, I have other question, how can I obtain the VCF files containing the SNPs that distinguish two species? Thank you !
Comment: How to do allele specific expression analysis (ASE)
by
chentongouc
• 0
Thank you ! I will try it!
Comment: FilterMutectCalls producing empty vcf file
by
ChumBucket2024
• 0
Nevermind, sorry. I figured out the issue. It was that I had moved the .stats file to another directory.
Answer: How to do allele specific expression analysis (ASE)
by
dsull
★ 7.2k
Obtain the VCF files containing the SNPs that distinguish your species from the reference genome, then run STAR with the WASP workflow (see…
Comment: FilterMutectCalls producing empty vcf file
by
Pierre Lindenbaum
165k
> but this gave me an empty file do you mean there was no variant or the file was just empty ? Show us the command line as well as the wa…
Comment: File size increase after host read removal?
by
GenoMax
148k
Yes it is incorrect. You are looking for `>` which is the start of fasta header.
Comment: File size increase after host read removal?
by
akazen
• 0
I think you're right about it being a difference of compression - both gunzip -c 01_QC_IU/fasta.fastq.gz | wc -l ` and seqkit showed…
Comment: File size increase after host read removal?
by
Pierre Lindenbaum
165k
count number of **lines** in a compressed file: ``` gunzip -c 01_QC_IU/fasta.fastq.gz | wc -l ````
Comment: File size increase after host read removal?
by
akazen
• 0
fastq is what I want. I was just using fasta.fastq.gz as an example file name. Is the grep method I used incorrect?
Comment: File size increase after host read removal?
by
GenoMax
148k
> samtools fastq -@ 8 mouse_removal/bothReadsUnmapped_sorted/$sample.bam You are using `samtools fastq` so that will generate reads in fa…
Comment: File size increase after host read removal?
by
GenoMax
148k
To count reads which was a question before: Using `seqkit` ([**LINK**][1]) : seqkit stats fastq.gz Using `bbmap` ([**LINK**][2]) : …
Comment: Disease-Disease Association data
by
Pierre Lindenbaum
165k
do you have an example of such disease-disease association ?
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