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116,585 results • Page
1 of 2332
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0
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AGeNT LocatIt
AGeNT
LocatIt
WES
UMI
duplicates
updated 29 minutes ago by
Greg
• 0 • written 2.8 years ago by
jhy
▴ 10
0
votes
3
replies
43
views
Is it possible to get a list of representative genomes from a past RefSeq release?
representative
ncbi
asembly
refseq
updated 12 minutes ago by
GenoMax
141k • written 1 hour ago by
Bertalan_Takacs
▴ 90
0
votes
0
replies
19
views
One error problem occurred caused by data type during using GDCprepare to handle BRCA data
TCGA
GDCprepare
how-to
21 minutes ago by
glaciya2018
• 0
0
votes
0
replies
14
views
News:
8th Berlin Summer School in NGS Data Analysis - Apply Now
variantcalling
DNAseq
illumina
RNAseq
transcriptomics
1 hour ago by
David Langenberger
11k
0
votes
0
replies
23
views
roary not working with pgap output gff files with fasta sequence but works with prokka's gff outputs
pangenome
PGAP
NCBI
roary
Prokka
1 hour ago by
pramach1
▴ 40
0
votes
14
replies
3.4k
views
6 follow
Tax4Fun2 - error
tax4fun
silva
blast
updated 3 hours ago by
drstalinantony28
• 0 • written 2.2 years ago by
ymj
▴ 10
0
votes
1
reply
34
views
GEMMA GWAS how to specify factor or numerical for covariates
covariate
GEMMA
GWAS
updated 18 minutes ago by
Sofia
• 0 • written 4 hours ago by
mawigoj318
• 0
0
votes
0
replies
55
views
Sequence BLAST in plus/minus and plus/plus
blast
CRISPR
strand
sequencing
6 hours ago by
salias
• 0
3
votes
4
replies
185
views
To get p-values for the TPM
P-value
TPM
RSEM
updated 4 hours ago by
ATpoint
82k • written 10 hours ago by
VITALA
• 0
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
2.7k • written 7.4 years ago by
Istvan Albert
100k
0
votes
2
replies
99
views
different FeatureCounts output for the same data
fpkm
rnaseq
Counts
Rsubread
updated 2 hours ago by
Istvan Albert
100k • written 6 hours ago by
sehriban.buyukkilic
▴ 10
0
votes
0
replies
44
views
Alternative splicing analysis using SUPPA tool - how to normalise counts?
single-cell
suppa
rnaseq
splicing
alternative
1 hour ago by
newuser2024
• 0
0
votes
0
replies
37
views
Network Alignment
plugin
Cytoscape
CytoMCS
7 hours ago by
Akash D
▴ 40
0
votes
1
reply
76
views
alignment result
RNA-seq
samtool
analysis
hisat2
updated 4 hours ago by
GenoMax
141k • written 8 hours ago by
ahmad.sajad4541
• 0
0
votes
0
replies
43
views
News:
hands-on introduction to generalized linear models (GLMs) using R
GeneralizedLinearModels
GLMs
R
8 hours ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
44
views
Is result interpretation of the modelHomotypic function of the DoubletFinder correct?
doublet
hetero
Seurat
modelHomotypic
DoubletFinder
9 hours ago by
Jeyong
• 0
0
votes
1
reply
82
views
PCA plot (Suggestions Needed)
DESeq2
PCAplot
updated 1 hour ago by
jkim
▴ 170 • written 11 hours ago by
Aaliya
• 0
0
votes
2
replies
142
views
Wilcox test using data slot (log normalized count values) of scRNA-seq between two groups
scRNAseq
2 hours ago by
mropri
▴ 150
2
votes
2
replies
132
views
HaplotypeCaller - only SNPs
HaplotypeCaller
GATK
updated 11 hours ago by
analyst
▴ 30 • written 16 hours ago by
lorena9132
• 0
0
votes
0
replies
59
views
AttributeError: module 'scvelo' has no attribute 'pp
loomfile
scvelo
scipy
annData
numpy
16 hours ago by
Kash
▴ 110
7
votes
2
replies
199
views
Gene set enrichment analysis differences between 2020 and 2024
Gene-ontology
updated 16 hours ago by
geneontologyhelp
▴ 390 • written 1 day ago by
catherine.teyssier
• 0
0
votes
1
reply
147
views
Blasting two protein sequences vs two nucleotide sequences
gene-hunting
blast
updated 17 hours ago by
Istvan Albert
100k • written 1 day ago by
Abeer
• 0
0
votes
4
replies
225
views
Should I use unpaired reads from trimmomatic
RNA-seq
QC
Trimmomatic
updated 17 hours ago by
swbarnes2
14k • written 1 day ago by
dxj294
• 0
0
votes
1
reply
96
views
How to solve this RoseTTAFold colaboratory error?
modeling
Google
Colaboratory
RoseTTAFold
protein
updated 12 hours ago by
Mensur Dlakic
★ 27k • written 18 hours ago by
benguyarenbeyaz98
• 0
0
votes
2
replies
174
views
How to calculate identity percentage between proteins contained in a FASTA file?
percentage
FASTA
alignment
identity
updated 7 hours ago by
b.contreras.moreira
▴ 170 • written 18 hours ago by
v.berriosfarias
▴ 140
2
votes
1
reply
152
views
Seurat merge and batch correction
Seurat
updated 19 hours ago by
Ram
43k • written 1 day ago by
sooni
▴ 20
1
vote
1
reply
120
views
Herald:
The Biostar Herald for Tuesday, April 23, 2024
herald
updated 18 hours ago by
Pierre Lindenbaum
161k • written 19 hours ago by
Biostar
2.7k
1
vote
1
reply
101
views
Including plasmid in transcriptome assemblies
Bacteria
BOWTIE2
Transcriptomics
STAR
updated 19 hours ago by
GenoMax
141k • written 20 hours ago by
heelpPlease
• 0
2
votes
9
replies
768
views
TCGA2STAT Error: Firehose connection
FIREHOSE
TCGA
updated 14 hours ago by
LauferVA
4.2k • written 6 months ago by
Gnana
• 0
0
votes
10
replies
334
views
How do I use the STARSolo aligner with MGI DNBelab C series HT scRNAseq libraries?
STARSolo
scRNA-seq
STAR
snRNA-seq
MGI
12 hours ago by
atowns21
• 0
0
votes
1
reply
110
views
Find subcluster under a cluster, find differential genes in one cluster between 2 samples??
clustering
subclustering
scRNAseq
updated 20 hours ago by
bk11
★ 2.3k • written 21 hours ago by
alphaflylizard
• 0
3
votes
3
replies
170
views
Forum:
Ideal PC configurations and operating system for bioinformatics laboratory
PC
updated 21 hours ago by
GenoMax
141k • written 21 hours ago by
Estevão
• 0
0
votes
3
replies
190
views
Difference between samtools "-f 9" and "-f 11"
samtools
sam
bam
updated 17 hours ago by
Istvan Albert
100k • written 22 hours ago by
Dylan
• 0
1
vote
2
replies
105
views
How to trim transcripts using information from NCBI contamination screen report
RNAseq
assembly
transcriptome
contamination
updated 22 hours ago by
GenoMax
141k • written 22 hours ago by
Lada
▴ 30
4
votes
11
replies
446
views
Redirection of Duplicate PMIDs
pubmed
pmid
updated 14 hours ago by
LauferVA
4.2k • written 1 day ago by
dominickd
• 0
3
votes
11
replies
489
views
How to convert plink files to Hapmap Format
GWAS
Plink
updated 20 minutes ago by
bk11
★ 2.3k • written 6 weeks ago by
Sofia
• 0
0
votes
0
replies
69
views
The concept of co-occurrence network structure
co-occurence
microbiome
network
1 day ago by
ohtang7
▴ 40
3
votes
0
replies
88
views
News:
Interested in Spatial Omics?
Bioconductor
Spatial-Omics
Spatial-Transcriptomics
updated 1 day ago by
Ram
43k • written 1 day ago by
carlopecoraro2
★ 2.5k
2
votes
2
replies
386
views
Using vg gamsort with naive sorting algorithm
gamsort
vg
updated 1 day ago by
Pierre Lindenbaum
161k • written 8 months ago by
AshleeThomson
▴ 80
0
votes
1
reply
124
views
Plot DNA methylation level of DMR on the basis of certain genes
rrbs
methylkit
updated 1 day ago by
GenoMax
141k • written 1 day ago by
Srinka
▴ 20
8
votes
5
replies
4.8k
views
ISCN annotation for SV/CN VCF files
SV
written 7 months ago by
a.beggs
▴ 60
0
votes
5
replies
244
views
Should I remove unlocalized scaffols in reference genome before alignment?
qualimap
alignment
minimap2
GRCh38
assembly
4 hours ago by
njornet
▴ 20
5
votes
4
replies
593
views
How to compare the quality of assemblies
nextdenovo
assembly
hifiasm
pacbio
10 hours ago by
kirillkirilenko
▴ 40
0
votes
0
replies
71
views
Software to calculate RSCU, ENC other than codonw
rscu
codonw
updated 1 day ago by
Ram
43k • written 1 day ago by
SHREYA
• 0
0
votes
3
replies
347
views
How to identify gaps in a genome?
awk
seqkit
assembly
fasta
genome
updated 1 day ago by
colindaven
6.4k • written 9 days ago by
rj.rezwan
• 0
0
votes
0
replies
83
views
Merging replicates from Encode project
CHIP-seq
encode
1 day ago by
Nurken
• 0
1
vote
3
replies
183
views
Filter BAM to keep only alignments at an interval, ignoring reads spliced over
samtools
bam
splicing
1 day ago by
WouterDeCoster
47k
0
votes
3
replies
183
views
Help for coding: Trinity for differential gene expression studies
Gene
updated 1 day ago by
mchour
• 0 • written 1 day ago by
rhossen
• 0
1
vote
1
reply
141
views
WGCNA preservation analysis
WGCNA
preservation
updated 1 day ago by
Michael
54k • written 1 day ago by
michael.flower.14
▴ 180
1
vote
3
replies
219
views
some error in building kraken2 database
metagenome
kraken2
14 hours ago by
Art1ess
• 0
116,585 results • Page
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Answer: Fail to install umap-learn in R
Answer: Fail to install umap-learn in R
Answer: Fail to install umap-learn in R
What are Tiles in Sequencing
What are Tiles in Sequencing
Answer: How to trim transcripts using information from NCBI contamination screen report
Difference Between "Mate Pair" And "Pair-End"
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Comment: How to convert plink files to Hapmap Format
by
bk11
★ 2.3k
Please show me a few lines of phenotype updated .fam file. You can do `head your_data_phenoUP.fam` and paste result here. Please do not us…
Comment: GEMMA GWAS how to specify factor or numerical for covariates
by
Sofia
• 0
Hi, I don't have a solution to your question but I followed this tutorial and was helpful to me in my analysis https://youtu.be/NusV6duyvXs…
Comment: Is it possible to get a list of representative genomes from a past RefSeq releas
by
GenoMax
141k
Catalog file lists the genomes included. There seem to be 71365 unique items in field 2. 2 Bacteria WP_000018326.1 4459…
Comment: How to convert plink files to Hapmap Format
by
Sofia
• 0
yes sure ! ![enter image description here][1] [1]: /media/images/f0f94f6c-4387-4188-a1aa-19152a89
Answer: AGeNT LocatIt
by
Greg
• 0
Give it more memory. ~10x more memory, or whatever you can give it, I had samples that weren't even close to being done after 3.5 da…
Comment: Is it possible to get a list of representative genomes from a past RefSeq releas
by
Bertalan_Takacs
▴ 90
Thanks! I've already tried looking through these files, I need release 83. I am trying to find this information in the .catalog file of the…
Answer: Is it possible to get a list of representative genomes from a past RefSeq releas
by
GenoMax
141k
Possibly. You will need to know the RefSeq release version. Check in this directory: https://ftp.ncbi.nlm.nih.gov/refseq/release/release-ca…
Comment: How to convert plink files to Hapmap Format
by
bk11
★ 2.3k
Hey, can you please show me a few lines of your phenotype updated .fam file? I m seeing there are 7 columns in it, that might be the proble…
Comment: PCA plot (Suggestions Needed)
by
jkim
▴ 170
How much variance were explained by PC1 and PC2? It doesn't look like that the largest source of variation came from the genotype differenc…
Comment: How to trim transcripts using information from NCBI contamination screen report
by
Lada
▴ 30
Thank you and yes, I agree going step back is the best option but I am in a hurry at the moment so I just need to stick to the transcriptom…
Comment: How to convert plink files to Hapmap Format
by
Sofia
• 0
Thank you so much for helping me out! I did the steps you mentioned but still got the same issue as shown in the snapshot ![enter image des…
Comment: different FeatureCounts output for the same data
by
Istvan Albert
100k
Make sure you are using the same version of featureCounts, it has changed how it deals with paired end reads. The exact same command will p…
Comment: Wilcox test using data slot (log normalized count values) of scRNA-seq between t
by
mropri
▴ 150
Thank you, will do Wilcox for now as I only have one control and one treatment, as I get more control and treatment samples, will stick wit…
Comment: Is it Acceptable to Have Uniform Quality Scores in a FASTQ File?
by
Istvan Albert
100k
I think the blog post lines up wit both of our statements. It seems that 2-way binning (pass/fail) already dramatically improves the calls…
Comment: Tax4Fun2 - error
by
drstalinantony28
• 0
You have to follow this step to solve the issue. (Mostly this problem occurs in the Windows version) 1. If you are using R studio in Windo…
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