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120,999 results • Page
1 of 2420
Sort: Rank
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Votes
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0
votes
0
replies
13
views
dittoHeapmap didn't work in my data set(error code :Error in .subscript.2ary(x, i, j, drop = TRUE) : subscript out of bounds)
scRNAseq
15 minutes ago by
kayah
▴ 20
0
votes
0
replies
15
views
Visualise duplications and inversions
inversions
duplications
1 hour ago by
priya.bmg
▴ 70
0
votes
0
replies
17
views
Exon-level counts via featureCounts
diffSpliceDGE
exon
RNASeq
featureCounts
edgeR
updated just now by
Istvan Albert
102k • written 1 hour ago by
n_navy
• 0
0
votes
3
replies
47
views
Picard : Bait_interval and Target_interval
read_depth_measure
Picard_tool
Bed_file
coverage
7 minutes ago by
AIMAR
• 0
3
votes
2
replies
117
views
Does vg giraffe output secondary and supplimentary alignments?
vg
giraffe
8 hours ago by
lushjia
• 0
0
votes
1
reply
70
views
How to use LOEUF plugin in VEP?
LOEUF
VEP
updated 1 hour ago by
GenoMax
150k • written 14 hours ago by
Sd
• 0
0
votes
0
replies
72
views
Question about Calculation of Dietary index in the NHANES Database
index
DI-GM
Dietary
NHANES
21 hours ago by
城玮
• 0
836
votes
167
replies
173k
views
111 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 4 days ago by
Biostar
3.5k • written 8.4 years ago by
Istvan Albert
102k
0
votes
0
replies
72
views
Analysing gene CNV from TCGA using TCGAbiolinks
TCGA
22 hours ago by
Matt
• 0
0
votes
1
reply
159
views
Detection SNPs and Indels Bacteria
SNPs
updated 1 day ago by
Istvan Albert
102k • written 1 day ago by
Eltercertopico
• 0
1
vote
4
replies
333
views
protease candidates for my protein of interest
cleaving-site
proteases
protein
22 hours ago by
Fatemeh
▴ 40
0
votes
1
reply
123
views
Different number of fragments after doublets removal in each run
ArchR
updated 1 day ago by
Bastien Hervé
6.2k • written 1 day ago by
Bioinformatics_16
• 0
0
votes
0
replies
83
views
Seeking Guidance on Next Steps for DNA Methylation Biomarker Screening in Cancer Prognosis
early-cancer-screening
TCGA
Epigenomics
DNA-Methylation
cancer-prognosis
1 day ago by
Riley J
• 0
0
votes
1
reply
138
views
Help with Panel of Normal (PON)
somatic-mutation
PoN
updated 1 day ago by
Ram
45k • written 1 day ago by
TJ
• 0
4
votes
2
replies
234
views
Why don't I see people calculating FPKM from normalized read counts?
normalization
RNA-seq
updated 1 day ago by
ATpoint
87k • written 1 day ago by
shelkmike
★ 1.5k
1
vote
7
replies
362
views
Error during running wf-bacterial-genome (nextflow run epi2me-labs/wf-bacterial-genomes).
EPI2ME
MEDAKA
updated 19 hours ago by
GenoMax
150k • written 1 day ago by
Anurag
• 0
0
votes
0
replies
81
views
freebayes with pools of different number of individuals
freebayes
poolseq
1 day ago by
Jeanlain
• 0
0
votes
3
replies
183
views
Insight into Trimmomatic
Trimmomatic
Trimming
Reads
updated 1 day ago by
GenoMax
150k • written 1 day ago by
jh5ym
• 0
1
vote
3
replies
203
views
Trouble when uploading FASTQ files on NCBI
rnaseq
ncbi
4 hours ago by
Gerard
▴ 20
1
vote
4
replies
241
views
SyntaxError in file /snakefile, line 22: invalid decimal literal: None
python
snakemake
updated 21 hours ago by
Jesse
▴ 870 • written 1 day ago by
Ana
▴ 10
3
votes
2
replies
239
views
News:
Building an mmCIF parser for enzyme structure analysis — feedback & ideas welcome!
mmcif
1 day ago by
Shravya
• 0
0
votes
0
replies
120
views
News:
Course: Introduction to Genome Annotation (Online, 19–22 May 2025)
Gene-Prediction
Genome-Annotation
Gene-Models
2 days ago by
Physalia-courses
★ 2.6k
0
votes
1
reply
153
views
Error with running cellranger-atac count
cellranger
atac
single-cell
updated 1 day ago by
Ram
45k • written 2 days ago by
Khôi
• 0
0
votes
2
replies
215
views
HIC-pro with Forward and reverse reads not paired even when I use their test data.
HIC-pro
1 day ago by
Aki
▴ 20
1
vote
1
reply
322
views
Using DEXseq on kallisto tsv outputs ?
alignement
DEXseq
kallisto
updated 2 days ago by
Gordon Smyth
★ 7.9k • written 7 days ago by
Gerard
▴ 20
0
votes
0
replies
165
views
Job:
2025 Arrowhead AI/LLM for Computational Biology and Data Science Internship
intern
updated 2 days ago by
GenoMax
150k • written 2 days ago by
Shicheng Guo
★ 9.6k
1
vote
2
replies
513
views
ChIP-seq gene blacklist for Rattus norvegicus
rat
blacklist
ChIP-seq
updated 2 days ago by
GenoMax
150k • written 12 months ago by
Thomas
• 0
4
votes
10
replies
842
views
6 follow
Extract length of sample sequence from vcf
microsatellites
bcftools
vcf
indels
variants
updated 2 days ago by
cmdcolin
★ 4.2k • written 13 days ago by
jahnreinhard.ringger
• 0
0
votes
0
replies
149
views
Tutorial:
Fast SCENIC GRN Analysis with RegDiffusion
GRN
network
scRNA-seq
wgcna
2 days ago by
Hao
▴ 10
2
votes
3
replies
612
views
Is it reasonable to do "Gene Regulatory Network Inference" for each cell type and do differential GRN
GRN
scRNA-seq
updated 2 days ago by
Hao
▴ 10 • written 2.6 years ago by
shangguandong1996
▴ 30
1
vote
2
replies
372
views
Blastx issue
blastx
lncRNA
updated 1 day ago by
Ram
45k • written 5 days ago by
Avik
• 0
2
votes
9
replies
586
views
TPM vs FPKM divergence at high values
tpm
fpkm
normalisation
updated 1 day ago by
Istvan Albert
102k • written 5 days ago by
megancgrdnr
• 0
3
votes
0
replies
166
views
Herald:
The Biostar Herald for Monday, April 14, 2025
herald
2 days ago by
Biostar
3.5k
1
vote
2
replies
314
views
What is the best way to know if a pair of genes is random?
go-terms
genes
updated 1 day ago by
Ram
45k • written 6 days ago by
Ana
▴ 10
1
vote
1
reply
254
views
How to save the AlphaFold PAE plot as an image in ChimeraX using command line ?
PAE
ChimeraX
AlphaFold
updated 3 days ago by
LauferVA
4.7k • written 5 days ago by
Picasa
▴ 680
1
vote
0
replies
138
views
News:
LAST CALL - Bioinformatics Pipeline Development with Nextflow - May 19-21, 2025 (online) - Apply Now
nextflow
rnaseq
workshop
3 days ago by
ecSeq Bioinformatics
▴ 20
1
vote
2
replies
264
views
RNA-seq, three comparisons - stick to one linear model, or use separate models?
statistics
mixed-effect-model
stats
RNAseq
linear-model
updated 1 day ago by
Ram
45k • written 3 days ago by
noodlejackson
▴ 40
1
vote
1
reply
196
views
Using Principal Components may muddle the detecting power of a GWAS?
q-value
covariates
genomic-inflation
pca
gwas
updated 3 days ago by
DBScan
▴ 480 • written 3 days ago by
AndrMod
• 0
0
votes
0
replies
150
views
Use Seed or Full Alignments from Pfam HMM as a filter step
hmm
sequences
metagenomic
3 days ago by
Janelyn123
• 0
3
votes
4
replies
330
views
Helicobacter pylori low-rate alignment
RNA-seq
transcriptomics
updated 1 day ago by
Ram
45k • written 3 days ago by
Ariadna
▴ 20
14
votes
3
replies
11k
views
Can The Wget Command Be Used To Download Pdbs
pdb
updated 3 days ago by
Calvin
• 0 • written 13.5 years ago by
Harpalss
▴ 310
0
votes
3
replies
351
views
Is a log2 transformation an essential step in preparing expression data for machine learning?
Machine-learning
preproccessing
microarray
updated 1 day ago by
Ram
45k • written 4 days ago by
Sib
▴ 60
0
votes
2
replies
923
views
How to re-annotate the structure of gene against a known genomic file
RNA-Seq
updated 3 days ago by
Mensur Dlakic
★ 29k • written 5.9 years ago by
Kanoo
• 0
0
votes
2
replies
295
views
ONT Live-Basecalling Issue?
ONT
minKNOW
live-basecalling
updated 2 days ago by
LauferVA
4.7k • written 4 days ago by
Akshay
• 0
3
votes
4
replies
342
views
Identify gene from sequence at scale in non-model organisms
sequence
gene
updated 1 day ago by
Ram
45k • written 4 days ago by
matthewmerkin32
• 0
0
votes
0
replies
198
views
News:
Cellosaurus release 52 is available
biocuration
database
knowledgebase
cell-line
updated 1 day ago by
Ram
45k • written 4 days ago by
Amos Bairoch
▴ 130
0
votes
2
replies
332
views
WGCNA
WGCNA
updated 1 day ago by
Ram
45k • written 6 days ago by
香
• 0
0
votes
0
replies
495
views
Seeking Advice on Causal Inference for Treatment Effect Prediction (Small Sample, Genomic Covariates)
causal-inference
updated 1 day ago by
Ram
45k • written 5 days ago by
oghzzang
▴ 50
5
votes
5
replies
509
views
Batch effect
RNAseq
Batch-Effect
4 days ago by
Fatemeh
▴ 40
0
votes
4
replies
446
views
convert Gene ID to Gene Symbol
gene-id
updated 5 days ago by
pinheirofabiano
▴ 110 • written 7 days ago by
majorprogeria
• 0
120,999 results • Page
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Answer: Trouble when uploading FASTQ files on NCBI
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A: Could you explain the difference between STAR, KALLISTO, SALMON etc. to experime
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Recent Replies
Comment: Picard : Bait_interval and Target_interval
by
AIMAR
• 0
Thanks for the response. I've a targeted panel of genes. But if I have the bed.file I can obtain the target and bait file by using picard B…
Comment: Short reads to identify stuctural variants
by
GenoMax
150k
> Short reads aligned well within the inserted sequence but showed poor alignment in the flanking regions. If you have short-reads that c…
Comment: Short reads to identify stuctural variants
by
GenoMax
150k
> by analyzing the short-reads whole genome data Is that because you don't have long read data on those samples? > I have the short-rea…
Comment: Trimming nanopore reads
by
GenoMax
150k
> terminate called after throwing an instance of 'std::bad_array_new_length' It is possible that you may have identified a bug with `fastp…
Comment: TaxID mapping file
by
WaspInSpace
• 0
I know, this was posted some time ago, and I hope my comment is not off-topic, but in case anybody needs it, something concerning the colum…
Comment: Short reads to identify stuctural variants
by
priya.bmg
▴ 70
Thank you for this nice insight .Do you have any suggestions on methods to confirm if the identified structural variants in long reads are …
Comment: Trimming nanopore reads
by
dalibenam64
• 0
thank you very much I'm working on cds sequence of the gene of interest when I run this command : fastp -i path/input_folder/barco…
Comment: How to use LOEUF plugin in VEP?
by
GenoMax
150k
> but the link provided in the loeuf.pm file doesn't seem to work The plug-in code is present at: https://github.com/Ensembl/VEP_plugins/b…
Comment: Picard : Bait_interval and Target_interval
by
GenoMax
150k
> How do I get this file ? You will have to get this file for the kit that was used for the project (is it an exome or something else). Th…
Comment: Picard : Bait_interval and Target_interval
by
Pierre Lindenbaum
166k
see https://www.biostars.org/p/318576/ ; <!-- BAIT_INTERVALS=bait.interval_list \ #How do I get this file ? TARGET_INTERVALS=target.in…
Comment: Novaseq 6000 vs Novaseq X+
by
GenoMax
150k
NovaSeq X uses XLEAP-SBS chemistry. While two color like NovaSeq 6000, it is different. Though the chemistry may be different the sequence …
Comment: Trimming nanopore reads
by
GenoMax
150k
To complement the discussion here: `fastplong` ([**LINK**][1]) is a version of `fastp` meant for long reads such as ONT/PacBio. [1]: ht…
Comment: Trimming nanopore reads
by
GenoMax
150k
> Can I skip trimming my reads since I'm filtering them by taking those with the highest scores using fastp? While you could maybe you sh…
Comment: benefit of DNA assembly
by
XcodeLife
• 0
What is DNA Assembly? DNA assembly is the process of assembling fragments of DNA to create new or modified genetic sequences. It’s a key pa…
Comment: Novaseq 6000 vs Novaseq X+
by
Sampurna
• 0
Hi, my team is also upgrading from the NovaSeq 6000 to NovaSeq X. I was wondering if you did end up running into any sort of batch effects …
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