Latest
Open
Jobs
Tutorials
Tags
About
FAQ
Community
Planet
New Post
Log In
New Post
Latest
Open
News
Jobs
Tutorials
Forum
Tags
Planet
Users
Log In
Sign Up
About
Post does not exist.
Limit : all time
all time
today
this week
this month
this year
121,032 results • Page
1 of 2421
Sort: Rank
Rank
Views
Votes
Replies
0
votes
0
replies
26
views
Can I use glucose measured using two different devices in my study?
normalization
standardization
transformation
2 hours ago by
Faith
▴ 50
0
votes
1
reply
59
views
Limma model gives weird results
model
multivariate
Limma
updated 3 hours ago by
Gordon Smyth
★ 7.9k • written 4 hours ago by
leranwangcs
▴ 150
836
votes
167
replies
174k
views
111 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 10 days ago by
Biostar
3.5k • written 8.4 years ago by
Istvan Albert
102k
0
votes
0
replies
45
views
how to handle infinite M-values in methylation array data
M-value
methylation
infinite
array
5 hours ago by
matt192
• 0
1
vote
3
replies
575
views
Snakemake - pipeline shut down without error
snakemake
6 hours ago by
bhumm
▴ 200
0
votes
1
reply
85
views
Source for `transcript_name` in GTFs
GTF
updated 8 hours ago by
GenoMax
150k • written 9 hours ago by
gernophil
▴ 120
5
votes
5
replies
216
views
Tool:
Lightweight bash pipeline for ddRADseq read pre-processing, demultiplexing, and de-duplication using cutadapt
rad-seq
ddRADseq
demultiplexing
deduplication
10 hours ago by
Rafal
▴ 10
0
votes
2
replies
87
views
How to normalised DNA sequencing depth for genomic variant discovery ?
normalisation
read-depth
variant-calling
updated 10 hours ago by
Ram
45k • written 11 hours ago by
AIMAR
• 0
2
votes
4
replies
171
views
RNASeq featureCounts Help Needed
fungi
featurecounts
RNASeq
10 hours ago by
SomeOne
▴ 170
0
votes
0
replies
65
views
PAUP* error with exporting result file
PAUP
SVDquartet
12 hours ago by
ylkim9
• 0
0
votes
1
reply
83
views
I need to convert Axiom output to PLINK format I did not find annotation.db
Axiom
PLINK
apt-format-result
updated 10 hours ago by
GenoMax
150k • written 13 hours ago by
AlmuhayyaA
• 0
0
votes
2
replies
134
views
How to merge heterogeneously normalized RNA-seq datasets for meta-analysis?
normalization
rna-seq
4 hours ago by
pipelinfections
• 0
0
votes
0
replies
78
views
Tool:
I packaged some tools in python pypi for Windows (fastqc, bowtie2, samtools)
python
pypi
17 hours ago by
Cris
• 0
0
votes
3
replies
250
views
Transcript ID
id
transcript
updated 18 hours ago by
Meeru
• 0 • written 1 day ago by
cheong
• 0
0
votes
1
reply
120
views
Galaxy + RStudio
R
RNA-seq
RStudio
updated 16 hours ago by
swbarnes2
14k • written 1 day ago by
justus
• 0
8
votes
18
replies
3.1k
views
8 follow
How to limit fasta header to 40 characters?
unix
seqkit
fasta
updated 1 day ago by
jena
▴ 320 • written 19 months ago by
fishingline37
• 0
1
vote
2
replies
178
views
Transcript level quantification and gene length scaling for rRNA depleted libraries
RNASeq
updated 1 day ago by
dsull
★ 7.4k • written 1 day ago by
marc.zimmerli
▴ 10
0
votes
0
replies
99
views
Model diagnostics for GAM (Generalised Additive Model)
gam
mgcv
generalized-additive-model
1 day ago by
Tuấn Anh
• 0
2
votes
5
replies
567
views
Forum:
Small‑Lab Data Management & Analytics Tool – What are your biggest pain points?
biotech
startup
updated 1 day ago by
Darked89
4.7k • written 4 days ago by
Novoo
▴ 10
1
vote
1
reply
155
views
landscape of RNA types and their functions/ scRNA
transcriptomics
scRNA
biology
updated 1 day ago by
ATpoint
87k • written 1 day ago by
Ariadna
▴ 20
1
vote
1
reply
139
views
Is vg toolkit suitable for haplotype calling?
pangenome
haplotype
vg
updated 22 hours ago by
Jordan M Eizenga
▴ 700 • written 1 day ago by
Pau
• 0
0
votes
0
replies
96
views
Dfam annotations
dfam
1 day ago by
frarodmar17
• 0
0
votes
3
replies
362
views
miRNA alignment and count generation
aligment
Mapping
Bowtie
miRNAs
updated 1 day ago by
i.sudbery
21k • written 4 days ago by
omicon
▴ 40
1
vote
2
replies
199
views
Cytoscape Node Size Mapping
Cytoscape
2 days ago by
William
▴ 20
1
vote
2
replies
241
views
Deeptools: Custom gcbias plots in R possible?
computegcbias
deeptools
2 days ago by
RJDan
• 0
0
votes
3
replies
788
views
HOMER Motif Analysis-- homer2 error
rna-seq
homer
updated 2 days ago by
ATpoint
87k • written 15 months ago by
HypoGG
• 0
4
votes
0
replies
174
views
Herald:
The Biostar Herald for Monday, April 21, 2025
herald
2 days ago by
Biostar
3.5k
0
votes
4
replies
254
views
Forum:
ELISA‑Focused Lab Management & Analysis App – Would You Use It?
biotech
startup
updated 2 days ago by
Ram
45k • written 2 days ago by
Novoo
▴ 10
0
votes
0
replies
196
views
Job:
Research Fellow in Cancer Evolution (Deadline 30 Apr 2025)
Cancer-Phylogenetics
Chromosomal-Instability
updated 1 day ago by
Ram
45k • written 3 days ago by
Bingxin
• 0
1
vote
10
replies
808
views
Proper preprocessing for ML after limma, quantile normalization and log2 transformation: Is standardization still necessary?
featureselection
microarray
preprocessing
updated 9 hours ago by
Mensur Dlakic
★ 29k • written 4 days ago by
Sib
▴ 60
0
votes
0
replies
191
views
How to get gene count and transcript count from Stringtie
Stringtie
updated 3 days ago by
GenoMax
150k • written 3 days ago by
Abieskawa
• 0
1
vote
1
reply
333
views
Any recommendation for calculating Fu and Li's D using RStudio?
PopGenome
updated 3 days ago by
Michael
55k • written 5 days ago by
Chatchapon
• 0
1
vote
4
replies
418
views
Running out of disc space with wsl2
Memory
WSL2
capacity
Disc
updated 3 days ago by
Mensur Dlakic
★ 29k • written 4 days ago by
vladimir_vinarsky
• 0
0
votes
2
replies
280
views
Filtering vcf file for variants - including non-selected variants
bedtools
calling
variant
bcftools
4 days ago by
andrebolerbarros
• 0
0
votes
4
replies
426
views
UCSC's NCBI RefSeq Track tables: header differences
ucsc-genome-browswer
refseq
ncbi
5 days ago by
Synanth
• 0
3
votes
2
replies
1.4k
views
How do you do differential splicing using edgeR command diffSpliceDGE?
differential-splicing
diffSpliceDGE
edger
updated 5 days ago by
Gordon Smyth
★ 7.9k • written 3.2 years ago by
Assa Yeroslaviz
★ 1.9k
0
votes
0
replies
248
views
sequenced noise elimination in searching for snp
snp
sequencing
virus
5 days ago by
gagi1993
• 0
0
votes
1
reply
305
views
Issue with Agilent 2100 BioAnalyzer HS DNA Assay Trace
library-preparation
DNA
bioanalyzer
updated 5 days ago by
GenoMax
150k • written 6 days ago by
Beatrice
• 0
1
vote
2
replies
829
views
QIAseq 16S/ITS Screening Panel Primers?
16s
primers
metagenomics
ITS
updated 6 days ago by
GenoMax
150k • written 3.2 years ago by
Isaac
• 0
3
votes
2
replies
427
views
Analysing gene CNV from TCGA using TCGAbiolinks
TCGA
1 day ago by
Matt
• 0
1
vote
3
replies
415
views
How to use LOEUF plugin in VEP?
LOEUF
VEP
updated 6 days ago by
GenoMax
150k • written 7 days ago by
Sd
• 0
0
votes
0
replies
428
views
Trouble with CIBERSORTx: All P-values > 0.05, Low Correlation, High RMSE – What Could Be Going Wrong?
R
CIBERSORTx
CIBERSORT
script
updated 6 days ago by
GenoMax
150k • written 6 days ago by
Pumla
• 0
0
votes
1
reply
301
views
How can I identify genes with the MSTRG notation?
R
stringtie
RNA-Seq
updated 6 days ago by
GenoMax
150k • written 6 days ago by
pinheirofabiano
▴ 110
0
votes
0
replies
1.5k
views
dittoHeapmap didn't work in my data set(error code :Error in .subscript.2ary(x, i, j, drop = TRUE) : subscript out of bounds)
dittoseq
scRNAseq
updated 6 days ago by
ATpoint
87k • written 6 days ago by
kayah
▴ 20
1
vote
3
replies
398
views
Visualise duplications and inversions
inversions
duplications
updated 5 days ago by
cmdcolin
★ 4.2k • written 6 days ago by
priya.bmg
▴ 70
1
vote
3
replies
405
views
Exon-level counts via featureCounts
diffSpliceDGE
exon
RNASeq
featureCounts
edgeR
updated 2 days ago by
rfran010
★ 1.4k • written 6 days ago by
n_navy
• 0
0
votes
5
replies
430
views
Picard : Bait_interval and Target_interval
Picard
Bed
read-depth
coverage
updated 6 days ago by
Ram
45k • written 6 days ago by
AIMAR
• 0
3
votes
2
replies
358
views
Does vg giraffe output secondary and supplimentary alignments?
vg
giraffe
6 days ago by
lushjia
• 0
0
votes
0
replies
285
views
Question about Calculation of Dietary index in the NHANES Database
index
DI-GM
Dietary
NHANES
7 days ago by
城玮
• 0
0
votes
1
reply
391
views
Detection SNPs and Indels Bacteria
SNPs
updated 7 days ago by
Istvan Albert
102k • written 7 days ago by
Eltercertopico
• 0
121,032 results • Page
1 of 2421
Recent Votes
Answer: Snakemake - pipeline shut down without error
Answer: Getting sequences from fastq file using Grep command
Comment: RNASeq featureCounts Help Needed
Comment: RNASeq featureCounts Help Needed
Comment: Lightweight bash pipeline for ddRADseq read pre-processing, demultiplexing, and
Comment: Lightweight bash pipeline for ddRADseq read pre-processing, demultiplexing, and
A: FindConservedMarkers vs FindMarkers vs FindAllMarkers Seurat
Recent Locations •
All
Salvador, Bahia,
22 minutes ago
United States,
36 minutes ago
United States,
37 minutes ago
China,
47 minutes ago
Australia,
51 minutes ago
United States,
55 minutes ago
Russia,
1 hour ago
Recent Awards •
All
Popular Question
to
lastpaulo
• 0
Popular Question
to
leranwangcs
▴ 150
Scholar
to
bhumm
▴ 200
Centurion
to
jena
▴ 320
Teacher
to
Sam
★ 4.8k
Popular Question
to
predeus
★ 2.1k
Popular Question
to
sarahmanderni
▴ 120
Recent Replies
Comment: Limma model gives weird results
by
Gordon Smyth
★ 7.9k
The code that you show cannot be correct, because the `topTable` `coef` refers to a term that is not in the design matrix. The code as show…
Comment: How to merge heterogeneously normalized RNA-seq datasets for meta-analysis?
by
pipelinfections
• 0
Could you please elaborate on why you would never combine them into a single table? There are several papers that do this, e.g. [this one][…
Answer: Snakemake - pipeline shut down without error
by
bhumm
▴ 200
Circling back to answer my own question. After testing the `--dry-run` (as @Shred suggested) it completed as expected. The rule that consis…
Answer: Source for `transcript_name` in GTFs
by
GenoMax
150k
Manual annotation is done by `HAVANA` group from Ensembl: https://www.ensembl.org/info/genome/genebuild/manual_havana.html It would be fair…
Comment: Proper preprocessing for ML after limma, quantile normalization and log2 transfo
by
Mensur Dlakic
★ 29k
> Additionally, I’d greatly appreciate your insights on how to handle this issue for KNN, PCA, and Relief? I again refer you to what I alr…
Comment: What is the best way to know if a pair of genes is random?
by
shelkmike
★ 1.5k
Have you tried using the percentile in the distribution of Jaccard indices as the metric of randomness, as I suggested?
Comment: Lightweight bash pipeline for ddRADseq read pre-processing, demultiplexing, and
by
Rafal
▴ 10
@atpoint dependencies and hardcoding taken care of for the moment. Thanks again!
Comment: RNASeq featureCounts Help Needed
by
SomeOne
▴ 170
It was relly helpfull. Thank You.
Comment: How to normalised DNA sequencing depth for genomic variant discovery ?
by
AIMAR
• 0
Aaah I didn't know about that, could you share any document that mention that cause it'll be helpfull. Also the thing I've normal samples a…
Comment: How to normalised DNA sequencing depth for genomic variant discovery ?
by
zizigolu
★ 4.3k
You don’t need to manually normalize read depth before variant calling. Most somatic variant callers (like Mutect2, Strelka2, VarScan2) alr…
Comment: What is the best way to know if a pair of genes is random?
by
Ana
▴ 10
Coming back to this... I am having some trouble because, as I expected, when I obtain the overlap of GO terms in a given pair of genes and …
Comment: Lightweight bash pipeline for ddRADseq read pre-processing, demultiplexing, and
by
Rafal
▴ 10
Right! It is ready in ddradseq_pre.bash but in ddradseq_dedup.bash command line variables setup is not working yet. The directory variable…
Comment: Lightweight bash pipeline for ddRADseq read pre-processing, demultiplexing, and
by
ATpoint
87k
> The variables can be set in command line, also directory Is it? Looks hardcoded to me: https://github.com/rafalwoycicki/ddRADseq_reads/b…
Comment: RNASeq featureCounts Help Needed
by
GenoMax
150k
See answers here for question #3: https://support.bioconductor.org/p/78975/ and also https://support.bioconductor.org/p/9147887/#9147987 Y…
Comment: RNASeq featureCounts Help Needed
by
SomeOne
▴ 170
Hi. @genomax thank you for responding. 1. mRNA data is short read illumina. 2. NP02_scf_1 is scaffold name in my genome.fasta and ge…
Traffic: 2885 users visited in the last hour
Content
Search
Users
Tags
Badges
Help
About
FAQ
Access
RSS
API
Stats
Use of this site constitutes acceptance of our
User Agreement and Privacy Policy
.
Powered by the
version 2.3.6