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13,525 results • Page
2 of 271
Sort: Rank
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Votes
Replies
0
votes
4
replies
247
views
different FeatureCounts output for the same data
fpkm
Counts
Rsubread
rna-seq
20 hours ago by
sehriban.buyukkilic
▴ 10
0
votes
0
replies
110
views
Alternative splicing analysis using SUPPA tool - how to normalise counts?
rna-seq
single-cell
suppa
alternative-splicing
updated 1 day ago by
Ram
43k • written 1 day ago by
newuser2024
• 0
1
vote
2
replies
195
views
alignment result
RNA-seq
samtools
hisat2
23 hours ago by
ahmad.sajad4541
• 0
0
votes
0
replies
106
views
News:
hands-on introduction to generalized linear models (GLMs) using R
Generalized-Linear-Models
GLM
R
updated 1 day ago by
Ram
43k • written 1 day ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
93
views
Is result interpretation of the modelHomotypic function of the DoubletFinder correct?
doublet
DoubletFinder
Seurat
modelHomotypic
updated 1 day ago by
Ram
43k • written 1 day ago by
Jeyong
• 0
0
votes
2
replies
207
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
200
views
HaplotypeCaller - only SNPs
HaplotypeCaller
GATK
updated 2 days ago by
analyst
▴ 30 • written 2 days ago by
lorena9132
• 0
0
votes
0
replies
103
views
AttributeError: module 'scvelo' has no attribute 'pp
loomfile
scvelo
scipy
annData
numpy
2 days ago by
Kash
▴ 110
7
votes
2
replies
255
views
Gene set enrichment analysis differences between 2020 and 2024
Gene-ontology
updated 2 days ago by
geneontologyhelp
▴ 390 • written 3 days ago by
catherine.teyssier
• 0
0
votes
1
reply
197
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
283
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
139
views
How to solve this RoseTTAFold colaboratory error?
modeling
Google
Colaboratory
RoseTTAFold
protein
updated 2 days ago by
Mensur Dlakic
★ 27k • written 2 days ago by
benguyarenbeyaz98
• 0
0
votes
2
replies
233
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
3
votes
1
reply
208
views
Seurat merge and batch correction
Seurat
updated 2 days ago by
Ram
43k • written 3 days ago by
sooni
▴ 20
1
vote
1
reply
177
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
140
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
816
views
TCGA2STAT Error: Firehose connection
FIREHOSE
TCGA
updated 2 days ago by
LauferVA
4.2k • written 6 months ago by
Gnana
• 0
0
votes
11
replies
451
views
How do I use the STARSolo aligner with MGI DNBelab C series HT scRNAseq libraries?
STARSolo
scRNA-seq
STAR
snRNA-seq
MGI
5 hours ago by
atowns21
• 0
0
votes
1
reply
148
views
Find subcluster under a cluster, find differential genes in one cluster between 2 samples??
clustering
subclustering
scRNAseq
updated 2 days ago by
bk11
★ 2.4k • written 2 days ago by
alphaflylizard
• 0
3
votes
3
replies
214
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
229
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
246
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
503
views
Redirection of Duplicate PMIDs
pubmed
pmid
updated 2 days ago by
LauferVA
4.2k • written 3 days ago by
dominickd
• 0
8
votes
15
replies
712
views
How to convert plink files to Hapmap Format
GWAS
Plink
updated 2 hours ago by
GenoMax
141k • written 7 weeks ago by
Sofia
• 0
0
votes
0
replies
92
views
The concept of co-occurrence network structure
co-occurence
microbiome
network
2 days ago by
ohtang7
▴ 40
3
votes
0
replies
112
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
414
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
150
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
285
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
2 days ago by
kirillkirilenko
▴ 40
0
votes
0
replies
86
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
365
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
204
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
198
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
152
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
244
views
some error in building kraken2 database
metagenome
kraken2
2 days ago by
Art1ess
• 0
0
votes
1
reply
128
views
Subset Seurat object from Xenium spatial data
Seurat
Xenium
Spatial
updated 2 days ago by
bk11
★ 2.4k • written 2 days ago by
Susmita Mandal
▴ 110
0
votes
1
reply
126
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
162
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
159
views
Forum:
Improvement on automatic annotation of single-cell RNA-seq data from the literature using LLM
annotation
scRNA
llm
3 days ago by
yxwucq
• 0
0
votes
0
replies
84
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 3 days ago by
SSSJec
• 0
0
votes
6
replies
299
views
How to slice a gvcf file with tabix?
Tabix
bed
gvcf
2 days ago by
Sd
• 0
0
votes
2
replies
173
views
Help with Base quality Score Recalibration (BQSR) using GATK
GATK
BQSR
3 days ago by
sainavyav22
• 0
0
votes
1
reply
142
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
302
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
411
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
106
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
13,525 results • Page
2 of 271
Recent Votes
Answer: Seurat merge and batch correction
Comment: How to convert plink files to Hapmap Format
Comment: How to convert plink files to Hapmap Format
Comment: How to convert plink files to Hapmap Format
Comment: How to convert plink files to Hapmap Format
Comment: How to convert plink files to Hapmap Format
Answer: Missing protein (VEGF-A) in String db
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Answer: gvcf joint calling
by
Jeremy Leipzig
22k
> Hi, guys, there is a question about the genomic gVCF file. I wonder > that since gVCF contains the non-var block records, why after merge…
Comment: Missing protein (VEGF-A) in String db
by
shalespringer
• 0
Thank you for replying here; this helped me figure out why MAPK10 was missing from my results. It was also marked as a pseudogene in the En…
Comment: How to convert plink files to Hapmap Format
by
Sofia
• 0
These are the first lines of the output: (Please is it normal to have NA in the P value column ?) CHR …
Comment: How do I use the STARSolo aligner with MGI DNBelab C series HT scRNAseq librarie
by
atowns21
• 0
So I used the barcodes that I created (combos of positions 1-10 and 11-20) and I obtained similar alignment stats as the paper I pulled the…
Comment: How to convert plink files to Hapmap Format
by
Sofia
• 0
Thank you so much, it actually worked!
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
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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
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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
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82k
I recommend https://bioconductor.org/books/3.18/OSCA.basic/normalization.html as well as the "advanced" section in this book.
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by
QX
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thank you!
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Hello, I have more or less same experimental setting and was wondering how you proceeded with your analysis? Can I reach its GitHub reposit…
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> 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/
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