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 : this week
all time
today
this week
this month
this year
195 results • Page
2 of 4
Sort: Rank
Rank
Views
Votes
Replies
0
votes
2
replies
206
views
Wilcox test using data slot (log normalized count values) of scRNA-seq between two groups
scRNAseq
1 day ago by
mropri
▴ 150
2
votes
2
replies
196
views
HaplotypeCaller - only SNPs
HaplotypeCaller
GATK
updated 1 day ago by
analyst
▴ 30 • written 1 day ago by
lorena9132
• 0
0
votes
0
replies
103
views
AttributeError: module 'scvelo' has no attribute 'pp
loomfile
scvelo
scipy
annData
numpy
1 day ago by
Kash
▴ 110
7
votes
2
replies
254
views
Gene set enrichment analysis differences between 2020 and 2024
Gene-ontology
updated 1 day ago by
geneontologyhelp
▴ 390 • written 3 days ago by
catherine.teyssier
• 0
0
votes
1
reply
196
views
Blasting two protein sequences vs two nucleotide sequences
gene-hunting
blast
updated 2 days ago by
Istvan Albert
100k • written 3 days ago by
Abeer
• 0
0
votes
4
replies
277
views
Should I use unpaired reads from trimmomatic
RNA-seq
QC
Trimmomatic
updated 2 days ago by
swbarnes2
14k • written 3 days ago by
dxj294
• 0
0
votes
1
reply
138
views
How to solve this RoseTTAFold colaboratory error?
modeling
Google
Colaboratory
RoseTTAFold
protein
updated 1 day ago by
Mensur Dlakic
★ 27k • written 2 days ago by
benguyarenbeyaz98
• 0
0
votes
2
replies
227
views
How to calculate identity percentage between proteins contained in a FASTA file?
protein
FASTA
alignment
updated 1 day ago by
Ram
43k • written 2 days ago by
v.berriosfarias
▴ 140
2
votes
1
reply
200
views
Seurat merge and batch correction
Seurat
updated 2 days ago by
Ram
43k • written 2 days ago by
sooni
▴ 20
1
vote
1
reply
173
views
Herald:
The Biostar Herald for Tuesday, April 23, 2024
herald
updated 2 days ago by
Pierre Lindenbaum
161k • written 2 days ago by
Biostar
2.7k
1
vote
1
reply
138
views
Including plasmid in transcriptome assemblies
Bacteria
BOWTIE2
Transcriptomics
STAR
updated 2 days ago by
GenoMax
141k • written 2 days ago by
heelpPlease
• 0
2
votes
9
replies
815
views
TCGA2STAT Error: Firehose connection
FIREHOSE
TCGA
updated 1 day ago by
LauferVA
4.2k • written 6 months ago by
Gnana
• 0
0
votes
10
replies
400
views
How do I use the STARSolo aligner with MGI DNBelab C series HT scRNAseq libraries?
STARSolo
scRNA-seq
STAR
snRNA-seq
MGI
1 day ago by
atowns21
• 0
0
votes
1
reply
147
views
Find subcluster under a cluster, find differential genes in one cluster between 2 samples??
clustering
subclustering
scRNAseq
updated 2 days ago by
bk11
★ 2.3k • written 2 days ago by
alphaflylizard
• 0
3
votes
3
replies
211
views
Forum:
Ideal PC configurations and operating system for bioinformatics laboratory
PC
updated 2 days ago by
GenoMax
141k • written 2 days ago by
Estevão
• 0
0
votes
3
replies
228
views
Difference between samtools "-f 9" and "-f 11"
samtools
sam
bam
updated 2 days ago by
Istvan Albert
100k • written 2 days ago by
Dylan
• 0
2
votes
4
replies
242
views
How to trim transcripts using information from NCBI contamination screen report
RNAseq
assembly
transcriptome
contamination
updated 1 day ago by
GenoMax
141k • written 2 days ago by
Lada
▴ 30
4
votes
11
replies
497
views
Redirection of Duplicate PMIDs
pubmed
pmid
updated 1 day ago by
LauferVA
4.2k • written 2 days ago by
dominickd
• 0
3
votes
13
replies
644
views
How to convert plink files to Hapmap Format
GWAS
Plink
updated 1 day ago by
bk11
★ 2.3k • written 7 weeks ago by
Sofia
• 0
0
votes
0
replies
91
views
The concept of co-occurrence network structure
co-occurence
microbiome
network
2 days ago by
ohtang7
▴ 40
3
votes
0
replies
110
views
News:
Interested in Spatial Omics?
Bioconductor
Spatial-Omics
Spatial-Transcriptomics
updated 2 days ago by
Ram
43k • written 2 days ago by
carlopecoraro2
★ 2.5k
2
votes
2
replies
413
views
Using vg gamsort with naive sorting algorithm
gamsort
vg
updated 2 days ago by
Pierre Lindenbaum
161k • written 8 months ago by
AshleeThomson
▴ 80
0
votes
1
reply
148
views
Plot DNA methylation level of DMR on the basis of certain genes
rrbs
methylkit
updated 2 days ago by
GenoMax
141k • written 2 days ago by
Srinka
▴ 20
8
votes
5
replies
5.1k
views
ISCN annotation for SV/CN VCF files
SV
written 7 months ago by
a.beggs
▴ 60
0
votes
5
replies
282
views
Should I remove unlocalized scaffols in reference genome before alignment?
qualimap
alignment
minimap2
GRCh38
assembly
1 day ago by
njornet
▴ 20
5
votes
4
replies
620
views
How to compare the quality of assemblies
nextdenovo
assembly
hifiasm
pacbio
1 day ago by
kirillkirilenko
▴ 40
0
votes
0
replies
85
views
Software to calculate RSCU, ENC other than codonw
rscu
codonw
updated 2 days ago by
Ram
43k • written 2 days ago by
SHREYA
• 0
0
votes
3
replies
363
views
How to identify gaps in a genome?
awk
seqkit
assembly
fasta
genome
updated 2 days ago by
colindaven
6.4k • written 10 days ago by
rj.rezwan
• 0
0
votes
0
replies
93
views
Merging replicates from Encode project
CHIP-seq
encode
2 days ago by
Nurken
• 0
1
vote
3
replies
201
views
Filter BAM to keep only alignments at an interval, ignoring reads spliced over
samtools
bam
splicing
2 days ago by
WouterDeCoster
47k
0
votes
3
replies
197
views
Help for coding: Trinity for differential gene expression studies
Gene
updated 2 days ago by
mchour
• 0 • written 2 days ago by
rhossen
• 0
1
vote
1
reply
151
views
WGCNA preservation analysis
WGCNA
preservation
updated 2 days ago by
Michael
54k • written 2 days ago by
michael.flower.14
▴ 180
1
vote
3
replies
237
views
some error in building kraken2 database
metagenome
kraken2
1 day ago by
Art1ess
• 0
0
votes
1
reply
125
views
Subset Seurat object from Xenium spatial data
Seurat
Xenium
Spatial
updated 2 days ago by
bk11
★ 2.3k • written 2 days ago by
Susmita Mandal
▴ 110
0
votes
1
reply
125
views
Plots for DNA methylation data
plots
DNA
methylation
updated 2 days ago by
GenoMax
141k • written 2 days ago by
sarahawan92
▴ 10
0
votes
3
replies
478
views
python file for coding potential calculator
cpc2.py
updated 2 days ago by
atharvakarkare14
▴ 10 • written 7 days ago by
Ashok
• 0
1
vote
1
reply
161
views
Failed kmer content
kmer
illumina
ngs
updated 2 days ago by
Ram
43k • written 2 days ago by
Kasturi
• 0
0
votes
0
replies
157
views
Forum:
Improvement on automatic annotation of single-cell RNA-seq data from the literature using LLM
annotation
scRNA
llm
2 days ago by
yxwucq
• 0
0
votes
0
replies
81
views
How do I select a GC file (gc.wig)? (How to determine the inputdata of HMMcopy)
HMMcopy
Copy-number-analysis
R
updated 2 days ago by
Ram
43k • written 2 days ago by
SSSJec
• 0
0
votes
6
replies
294
views
How to slice a gvcf file with tabix?
Tabix
bed
gvcf
2 days ago by
Sd
• 0
0
votes
2
replies
172
views
Help with Base quality Score Recalibration (BQSR) using GATK
GATK
BQSR
3 days ago by
sainavyav22
• 0
0
votes
1
reply
140
views
Identification of Transgene insertion sites
Transgene
Whole-Genome-Sequencing
transgene-sites
updated 3 days ago by
Ram
43k • written 3 days ago by
Cameron.walker9900
• 0
0
votes
8
replies
295
views
Error in cnetplot enrichplot package
R
updated 3 days ago by
Ram
43k • written 3 days ago by
Farhad
• 0
3
votes
9
replies
408
views
Is it Acceptable to Have Uniform Quality Scores in a FASTQ File?
FASTQ
updated 1 day ago by
Istvan Albert
100k • written 3 days ago by
Κοσμάς
• 0
0
votes
0
replies
105
views
Pairwise alignment and Ka/Ks computation
Pairwise-Alignment
Genomics
Ka-Ks
updated 3 days ago by
Ram
43k • written 3 days ago by
maxime.policarpo
▴ 200
3
votes
3
replies
189
views
Genbank vs SRA
ncbi
genbank
genomics
sra
updated 3 days ago by
Mensur Dlakic
★ 27k • written 3 days ago by
c_u
▴ 520
0
votes
0
replies
90
views
Analysis of the gene family of a genome.
Genome
gene-family
updated 3 days ago by
Ram
43k • written 3 days ago by
sansan_96
▴ 80
0
votes
0
replies
92
views
File with NCBI summary or Uniprot description
annotation
visualisation
NCBI
Uniprot
RNA
updated 2 days ago by
Ram
43k • written 3 days ago by
Amélie
• 0
0
votes
0
replies
179
views
Meta analysis of two GWAS summary statistics: one study is case-control and the other is quantitative
GWAS
Meta-analysis
updated 3 days ago by
Ram
43k • written 3 days ago by
Oak
▴ 10
1
vote
3
replies
2.4k
views
Problem to remove subset of patients with plink
plink
PED
updated 3 days ago by
chrchang523
10k • written 6.1 years ago by
Ginevra
▴ 10
195 results • Page
2 of 4
Recent Votes
Comment: Sequence read length shorter than flow cell specification
How to calculate reliable Ka/Ks or dN/dS ratio for genes of interest from VCF file
Detecting somatic variants in non-tumor tissue without normals
Answer: Sequence read length shorter than flow cell specification
Answer: Sequence read length shorter than flow cell specification
Comment: Why gatk VariantAnnotator required bam and coverage files
A: Generate Vcf.Gz File And Its Index File Vcf.Gz.Tbi
Recent Locations •
All
Whitefish, MT,
just now
Turkey,
2 minutes ago
Cambridge, MA,
8 minutes ago
United States,
9 minutes ago
Switzerland,
10 minutes ago
Canada,
10 minutes ago
United States,
10 minutes ago
Recent Awards •
All
Scholar
to
ATpoint
82k
Popular Question
to
zdiazmar
▴ 30
Popular Question
to
hkarakurt
▴ 180
Student
to
John Torcivia
▴ 70
Popular Question
to
bioinfo
▴ 150
Popular Question
to
jvijai
★ 1.2k
Scholar
to
otieno43
▴ 30
Recent Replies
Answer: Rare Disease Variant Pathway Analysis
by
LauferVA
4.2k
Hi @efc1e545 , First a caveat. the information we most need in order to help guide you to a successful conclusion is not provided in thi…
Answer: Sequence read length shorter than flow cell specification
by
swbarnes2
14k
The company probably had you share your run with someone who needed the extra bases. So you get the extra bases free. Just use them unle…
Comment: how to combine multiple RNAseq count files into a single dataframe in R and unix
by
Ram
43k
Thank you, the `csvtk spread` is super useful. I usually import into R using `lapply` then `Reduce` using `merge` but this might be easier.
Comment: Annovar using R package
by
DKA
▴ 40
Thank you for your guidance. The thing is that I am unfamiliar with using such environments, unfortunately.
Comment: Treatment VS Control in Single Cell RNAseq analysis
by
ATpoint
82k
Open a new question, with details.
Comment: Normalize scRNAseq data to housekeeping genes to compare several datasets
by
ATpoint
82k
I recommend https://bioconductor.org/books/3.18/OSCA.basic/normalization.html as well as the "advanced" section in this book.
Comment: Why gatk VariantAnnotator required bam and coverage files
by
QX
• 0
thank you!
Comment: Treatment VS Control in Single Cell RNAseq analysis
by
kilcdincer
▴ 10
Hello, I have more or less same experimental setting and was wondering how you proceeded with your analysis? Can I reach its GitHub reposit…
Comment: BLAST using both nucleotides and taxonomic local databases
by
GenoMax
141k
> I ask this as some BLAST command fields as scinames or sblastnames do not give any output with a classic nt BLAST If that information is…
Answer: BLAST using both nucleotides and taxonomic local databases
by
5heikki
11k
This has been discussed [many times][1] [1]: https://www.biostars.org/p/76551/
Answer: why renaming Idents in Seurat object doesn't work?
by
Bioinfotec
▴ 10
I think when you give indent to seuObj : ```r Idents(seuObj) <- 'RNA_snn_res.0.1' ``` You may wrongly assign other value to it such as `…
Answer: ScRNAseq-How to correctly choose cell type marker genes
by
Bioinfotec
▴ 10
In fact, there is no gold standard for cell type annotation. To achieve correct cell type classification, you can combine the two methos. F…
Answer: ScRNA data question
by
Bioinfotec
▴ 10
In violin plot, a dot represents a cell. Actually, the straight lines you see in your infected image just means these cells have the same e…
Comment: Sequence read length shorter than flow cell specification
by
GenoMax
141k
> the have sent data with different sequencing read lengths: 55bp pair ended and 80bp single ended If they sent data that is not what you…
Comment: How to know synonymous and non-synonymous SNPs from transcriptome sequencing
by
rohitsatyam102
▴ 850
I have some off-the-chart dN/dS values for few genes (>20) when using your script on VCF obtained from a 20K plasmodium genomes (pf7K). | …
Traffic: 2567 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