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
Limit : all time
all time
today
this week
this month
this year
116,557 results • Page
1 of 2332
Sort: Rank
Rank
Views
Votes
Replies
0
votes
1
reply
16
views
Plot DNA methylation level of DMR on the basis of certain genes
rrbs
methylkit
updated 20 minutes ago by
GenoMax
141k • written 26 minutes ago by
Srinka
▴ 20
7
votes
5
replies
4.5k
views
ISCN annotation for SV/CN VCF files
SV
written 7 months ago by
a.beggs
▴ 50
0
votes
1
reply
16
views
Should I remove unlocalized scaffols in reference genome before alignment?
qualimap
alignment
minimap2
GRCh38
assembly
updated 20 minutes ago by
GenoMax
141k • written 43 minutes ago by
njornet
▴ 20
5
votes
3
replies
475
views
How to compare the quality of assemblies
nextdenovo
assembly
hifiasm
pacbio
updated 1 hour ago by
colindaven
6.4k • written 5 days ago by
kirillkirilenko
▴ 40
0
votes
0
replies
12
views
Software to calculate RSCU, ENC other than codonw
rscu
bioinformatics
codonw
1 hour ago by
SHREYA
• 0
0
votes
3
replies
264
views
How to identify gaps in a genome?
awk
seqkit
assembly
fasta
genome
updated 1 hour ago by
colindaven
6.4k • written 8 days ago by
rj.rezwan
• 0
0
votes
0
replies
15
views
Merging replicates from Encode project
CHIP-seq
encode
1 hour ago by
Nurken
• 0
1
vote
3
replies
90
views
Filter BAM to keep only alignments at an interval, ignoring reads spliced over
samtools
bam
splicing
2 hours ago by
WouterDeCoster
47k
795
votes
167
replies
141k
views
109 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 3 months ago by
Biostar
2.6k • written 7.4 years ago by
Istvan Albert
100k
0
votes
3
replies
71
views
Help for coding: Trinity for differential gene expression studies
Gene
updated 24 minutes ago by
mchour
• 0 • written 3 hours ago by
rhossen
• 0
0
votes
1
reply
71
views
WGCNA preservation analysis
WGCNA
preservation
updated 3 hours ago by
Michael
54k • written 4 hours ago by
michael.flower.14
▴ 180
0
votes
2
replies
59
views
some error in building kraken2 database
metagenome
database
bioinformatics
kraken2
updated 1 hour ago by
GenoMax
141k • written 3 hours ago by
Art1ess
• 0
0
votes
0
replies
24
views
Subset Seurat object from Xenium spatial data
Seurat
Xenium
Spatial
4 hours ago by
Susmita Mandal
▴ 110
0
votes
1
reply
63
views
Plots for DNA methylation data
plots
DNA
methylation
updated 1 hour ago by
GenoMax
141k • written 5 hours ago by
sarahawan92
▴ 10
0
votes
3
replies
424
views
python file for coding potential calculator
cpc2.py
updated 5 hours ago by
atharvakarkare14
▴ 10 • written 4 days ago by
Ashok
• 0
0
votes
1
reply
59
views
Failed kmer content
content
kmer
illumina
ngs
updated 1 hour ago by
GenoMax
141k • written 6 hours ago by
Kasturi
• 0
0
votes
1
reply
89
views
Heatmap and rna-seq
RNA-Seq
Heatmap
and
updated 5 hours ago by
Basti
★ 2.0k • written 7 hours ago by
qudrat.nii
▴ 10
0
votes
0
replies
64
views
Forum:
Improvement on automatic annotation of single-cell RNA-seq data from the literature using LLM
annotation
scRNA
llm
8 hours ago by
yxwucq
• 0
0
votes
0
replies
47
views
Seurat merge and batch correction
Seurat
9 hours ago by
sooni
▴ 20
0
votes
0
replies
36
views
How do I select a GC file (gc.wig)? (How to determine the inputdata of HMMcopy)
HMMcopy
R
Copy-number-analysis
gc.wig
genome
9 hours ago by
SSSJec
• 0
1
vote
4
replies
162
views
Redirection of Duplicate PMIDs
error
pmid
how-to
updated 9 hours ago by
LauferVA
4.2k • written 12 hours ago by
dominickd
• 0
0
votes
5
replies
196
views
How to slice a gvcf file with tabix?
Tabix
bed
gvcf
updated 13 hours ago by
Pierre Lindenbaum
161k • written 16 hours ago by
Sd
• 0
0
votes
2
replies
125
views
Help with Base quality Score Recalibration (BQSR) using GATK
GATK
BQSR
16 hours ago by
sainavyav22
• 0
0
votes
1
reply
94
views
Identification of Transgene insertion sites
Transgene
Whole-Genome-Sequencing
transgene-sites
updated 17 hours ago by
Ram
43k • written 17 hours ago by
Cameron.walker9900
• 0
0
votes
8
replies
225
views
Error in cnetplot enrichplot package
R
updated 16 hours ago by
Ram
43k • written 18 hours ago by
Farhad
• 0
1
vote
4
replies
159
views
Is it Acceptable to Have Uniform Quality Scores in a FASTQ File?
FASTQ
updated 18 hours ago by
Mensur Dlakic
★ 27k • written 18 hours ago by
Κοσμάς
• 0
0
votes
0
replies
69
views
Pairwise alignment and Ka/Ks computation
Pairwise-Alignment
Genomics
Ka-Ks
updated 18 hours ago by
Ram
43k • written 18 hours ago by
maxime.policarpo
▴ 200
3
votes
3
replies
132
views
Genbank vs SRA
ncbi
genbank
genomics
sra
updated 18 hours ago by
Mensur Dlakic
★ 27k • written 18 hours ago by
c_u
▴ 520
0
votes
0
replies
56
views
Analysis of the gene family of a genome.
Genome
gene-family
updated 18 hours ago by
Ram
43k • written 18 hours ago by
sansan_96
▴ 80
0
votes
2
replies
112
views
Should I use unpaired reads from trimmomatic
RNA-seq
QC
Trimmomatic
17 hours ago by
dxj294
• 0
0
votes
0
replies
59
views
File with NCBI summary or Uniprot description
annotation
function
visualisation
bulk
NCBI
Uniprot
RNA
3 hours ago by
Amélie
• 0
0
votes
0
replies
89
views
Meta analysis of two GWAS summary statistics: one study is case-control and the other is quantitative
GWAS
Meta-analysis
updated 18 hours ago by
Ram
43k • written 19 hours ago by
Oak
▴ 10
1
vote
3
replies
2.4k
views
Problem to remove subset of patients with plink
plink
PED
updated 16 hours ago by
chrchang523
10k • written 6.1 years ago by
Ginevra
▴ 10
2
votes
1
reply
100
views
Gene set enrichment analysis differences between 2020 and 2024
Gene-ontology
updated 20 hours ago by
ATpoint
81k • written 20 hours ago by
catherine.teyssier
• 0
2
votes
3
replies
152
views
from row count to tpm
tpm
row-count
normalization
5 hours ago by
michelafrancesconi9
▴ 20
0
votes
0
replies
65
views
Blasting two protein sequences vs two nucleotide sequences
gene-hunting
blast
updated 20 hours ago by
GenoMax
141k • written 21 hours ago by
Abeer
• 0
0
votes
4
replies
155
views
Downsampling fastq file
downsample
fastq
updated 21 hours ago by
Ram
43k • written 21 hours ago by
marco.barr
▴ 60
2
votes
3
replies
291
views
How to establish haplotype-specific gene expression levels
RNA-seq
Haplotype
updated 21 hours ago by
dsull
★ 5.8k • written 13 days ago by
javanokendo
▴ 60
0
votes
1
reply
105
views
tbtool
tbtool
updated 21 hours ago by
Ram
43k • written 21 hours ago by
Raman
• 0
0
votes
2
replies
153
views
Low mapping rate with Salmon
RNA-seq
Salmon
Quantification
updated 19 hours ago by
i.sudbery
19k • written 22 hours ago by
Patadu94
• 0
3
votes
3
replies
176
views
Getting the nucleotide sequence of proteins, having their UniProt IDs
Nucleotide
Genomic
Sequence
Uniprot
Proteins
updated 23 hours ago by
GenoMax
141k • written 1 day ago by
Mariana
▴ 10
0
votes
2
replies
127
views
clustalo - align milions of short seq, memory issue
memory
clustalo
updated 18 hours ago by
Mensur Dlakic
★ 27k • written 1 day ago by
emmanouil.a
▴ 120
0
votes
1
reply
96
views
Displaced fragment length distribution in ATAC-seq
ATAC-seq
nucleosome
fragment
updated 23 hours ago by
ATpoint
81k • written 1 day ago by
enanoide
• 0
0
votes
0
replies
70
views
Help with finding conferences in immuno-informatics/virology
virology
conferences
immunology
1 day ago by
manaswwm
▴ 490
3
votes
3
replies
697
views
KissDE and batch effect
kissDE
kissplice
1 day ago by
david.b.rombaut
▴ 10
0
votes
0
replies
61
views
Filtering most similarly expressed gene (contrary to differential expression gene) with NOISeq?
NOIseq
2 hours ago by
alifafiq1
• 0
76
votes
71
replies
19k
views
19 follow
Tutorial:
Clustering of DAVID gene enrichment results from gene expression studies
enrichment
david
updated 1 day ago by
GenoMax
141k • written 6.2 years ago by
Kevin Blighe
87k
0
votes
0
replies
69
views
How to get somatic variation based on RNA-seq data?
RNA-seq
variation
somatic
1 day ago by
feather-W
• 0
2
votes
3
replies
158
views
interpretartion of a vcf file
calling
genotype
ONT
variant
diploid
updated 3 hours ago by
Pierre Lindenbaum
161k • written 1 day ago by
samuelkalandarov2002
▴ 10
0
votes
0
replies
69
views
Annotating single cell data automatically
cell
annotation
single
1 day ago by
Gerard
• 0
116,557 results • Page
1 of 2332
Recent Votes
Filter BAM to keep only alignments at an interval, ignoring reads spliced over
Answer: Gene set enrichment analysis differences between 2020 and 2024
Answer: Fast way to extract specific sequences from large fasta
Answer: Fast way to extract specific sequences from large fasta
Comment: Intersect multiple BED files
Exciting 2024 Summer Internship Opportunity in Translational Genetics Arrowhead Pharmaceuticals!
Comment: Correlation for ATAC-Seq and Chip-Seq
Recent Locations •
All
United States,
just now
Russia,
1 minute ago
Riyadh,
2 minutes ago
France,
3 minutes ago
Bologna,
3 minutes ago
Greece,
4 minutes ago
United States,
8 minutes ago
Recent Awards •
All
Scholar
to
anovak
▴ 110
Popular Question
to
pfee418
▴ 10
Popular Question
to
sarahmanderni
▴ 100
Popular Question
to
Michael
54k
Popular Question
to
michael.flower.14
▴ 180
Popular Question
to
sarahawan92
▴ 10
Teacher
to
Mensur Dlakic
★ 27k
Recent Replies
Comment: Plot DNA methylation level of DMR on the basis of certain genes
by
Pierre Lindenbaum
161k
> Don't forget to follow up on your threads. If an answer was helpful, you should upvote it; if the answer resolved your question, you shou…
Comment: Should I remove unlocalized scaffols in reference genome before alignment?
by
GenoMax
141k
Yes you can remove those if you are only interested in annotated genes.
Comment: Help for coding: Trinity for differential gene expression studies
by
mchour
• 0
[This could help][1] [1]: https://github.com/trinityrnaseq/RNASeq_Trinity_Tuxedo_Workshop/wiki/Trinity-De-novo-Transcriptome-Assembly-W…
Answer: How to compare the quality of assemblies
by
colindaven
6.4k
Are you sure you have looked into the HiFiasm output files (fasta and GFA) in detail and excluded non-primary contigs, hap1, hap2 and other…
Answer: How to identify gaps in a genome?
by
colindaven
6.4k
You can use seqtk to find gaps in a fasta https://github.com/lh3/seqtk seqtk gap Usage: seqtk gap [-l 50] <in.fa>
Comment: some error in building kraken2 database
by
GenoMax
141k
> Obviously, running kraken2 after the build is complete does not produce the correct results What do you get instead? Error/no output? Ha…
Comment: Failed kmer content
by
GenoMax
141k
Can you post a screenshot of what you are referring to? Why did you choose to "clean" your data? FastQC analysis needs to be done keeping…
Comment: Help for coding: Trinity for differential gene expression studies
by
rhossen
• 0
It should be great if I have any assistance in my build up command using trinity package...
Comment: Filter BAM to keep only alignments at an interval, ignoring reads spliced over
by
WouterDeCoster
47k
I want reads in a specific short interval, but if I do that with samtools view I also get reads that are spliced over that interval.
Answer: Help for coding: Trinity for differential gene expression studies
by
mchour
• 0
Hello, I would recommend following RSEM wiki for more information about the options, or even run RSEM directly, not with the script provi…
Answer: WGCNA preservation analysis
by
Michael
54k
This seems like a model case for why we need better sustainable bioinformatics data and services. I don't know the exact background behind …
Comment: some error in building kraken2 database
by
Art1ess
• 0
this is names.dmp:![names.dmp][1] and nodes.dmp![nodes.dmp][2] [1]: /media/images/33cc9a8b-4818-48b4-913d-1c2b2185 [2]: /media/i…
Comment: Filter BAM to keep only alignments at an interval, ignoring reads spliced over
by
Pierre Lindenbaum
161k
see also : https://www.biostars.org/p/9537698/ ; https://www.biostars.org/p/9464312/ ; https://www.biostars.org/p/417123/
Comment: Filter BAM to keep only alignments at an interval, ignoring reads spliced over
by
Pierre Lindenbaum
161k
what's the gray section ? it's the read you want ? do you only want the reads that end at the splice event (single point location) ?
Comment: interpretartion of a vcf file
by
Pierre Lindenbaum
161k
yes if there is more than one sample genotyped.
Traffic: 2718 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