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1,000 results • Page
3 of 20
Sort: Rank
Rank
Views
Votes
Replies
0
votes
0
replies
95
views
GO analysis using diamond blastp output
blastp
GO
analysis
Diamond
3 days ago by
hellokwmin
• 0
8
votes
10
replies
593
views
7 follow
Snakemake vs Nextflow Upcoming bioinformatics Project
Programming
Masters
updated 3 days ago by
cfos4698
▴ 730 • written 11 days ago by
rackbersingh
• 0
0
votes
1
reply
126
views
Is it possible to use pseudoalignments.bam to run rMATs?
Kallisto
rMATs
updated 3 days ago by
dsull
★ 4.0k • written 3 days ago by
Lillian
• 0
1
vote
1
reply
160
views
When to merge multiple fastq files into one for RNAseq analysis?
rnaseq
aligning
bowtie2
updated 3 days ago by
GenoMax
127k • written 3 days ago by
lunarskye222
• 0
0
votes
2
replies
186
views
genome annotation [sstart] [send] - how to get protein sequence from gene
genome
annotation
2 days ago by
danfarkas
• 0
0
votes
0
replies
108
views
Error at phase 4 when running GeMoMa (homology-based annotation)
Homology
GeMoMa
Annotation
Genome
3 days ago by
breannar
• 0
12
votes
9
replies
735
views
6 follow
How to find promoter sequence of a gene?
promoter
3 days ago by
sunyeping
▴ 80
1
vote
4
replies
245
views
bash command to process a line
linux
command
updated 3 days ago by
GenoMax
127k • written 3 days ago by
saadleeshehreen
▴ 110
0
votes
0
replies
92
views
News:
Virtual RAD-seq Analysis Workshop!
workshops
popgen
genomics
rad-seq
3 days ago by
mia.nahom
▴ 10
2
votes
4
replies
208
views
Centromere and telomere positions for Chm13v2 assembly
centromere
chm13v2
3 days ago by
arsala521
▴ 10
0
votes
5
replies
273
views
featureCounts problem in reading Gff
featureCounts
GFF
RNA-seq
updated 3 days ago by
Ram
38k • written 3 days ago by
Beatrice
• 0
4
votes
0
replies
89
views
Tool:
PyComplexHeatmap: a Python package to visualize multimodal genomics data
visualization
Python
ComplexHeatmap
PyComplexHeatmap
updated 3 days ago by
Ram
38k • written 3 days ago by
Wubin
▴ 40
2
votes
2
replies
166
views
Retrieve hgnc_symbol from XM_ refseqs using BiomaRt
refseq_mrna_predicted
biomaRt
refseq
XM
3 days ago by
ladina.hoesli
• 0
0
votes
1
reply
138
views
Time change in expression vs time change in phenotype
RNA-Seq
DGE
DESeq2
3 days ago by
Ivan
• 0
0
votes
0
replies
86
views
How to perform a gsva assessing for the directonality of the genes.
gsva
3 days ago by
roybatty269
• 0
0
votes
4
replies
925
views
activity of unloaded/unassembled Tn5
sequencing
next-gen
updated 3 days ago by
ATpoint
71k • written 5.1 years ago by
zhaohainancau
• 0
7
votes
7
replies
528
views
Nextflow rnaseq finishing early
RNA-seq
nextflow
updated 3 days ago by
Ram
38k • written 3 days ago by
Raygozak
★ 1.4k
3
votes
6
replies
416
views
ClusterProfiler enrichKEGG – remove organism name in plots?
KEGG
ggplot2
enrichKEGG
ClusterProfiler
updated 3 days ago by
jv
★ 1.0k • written 10 days ago by
Sian
▴ 20
2
votes
0
replies
119
views
Herald:
The Biostar Herald for Tuesday, March 28, 2023
herald
3 days ago by
Biostar
1.6k
1
vote
4
replies
463
views
Retrieve protein sequence from Mgnify given only accession code
Mgnify
API
updated 3 days ago by
biomarco
▴ 20 • written 9 months ago by
jscience
• 0
1
vote
1
reply
210
views
Browsing MGnify IDs and clusters
metagenomics
mgnify
ebi
3 days ago by
biomarco
▴ 20
0
votes
0
replies
81
views
calculation of calibration factors using impuation reference panel and ethnicity
GWAS
Calibration
factor
3 days ago by
parveenkayenat
• 0
1
vote
4
replies
237
views
Artificial reads - remove multiple mapped reads against reference genome, and only keep reads that completely match without any mismatches - samtools
samtools
3 days ago by
Agamemnon
▴ 60
0
votes
0
replies
82
views
Haploview linkage format .ped and .info file error
plink
Haploview
vcftool
3 days ago by
Nai
▴ 50
6
votes
1
reply
175
views
what is IGV visualization lighter color variants stand for
visualization
vcf
IGV
updated 4 days ago by
Jorge Amigo
14k • written 4 days ago by
zhangfish
▴ 50
0
votes
2
replies
1.6k
views
Error when changing the database for minfi dropLociWithSnps
SNP
minfi
methylationEPIC
illumina
methylation
updated 4 days ago by
Satu
• 0 • written 5.7 years ago by
Ellen O
▴ 20
0
votes
0
replies
117
views
Bcftools consensus generates mismatched consensus sequence
Consensus
sequence
4 days ago by
Duy
• 0
0
votes
0
replies
83
views
Is there a function to get the number of aligned sites between pairs of sequences in a multiple sequence alignment in R?
msa
R
4 days ago by
audrey
• 0
0
votes
0
replies
103
views
Nucleotide substitution model and neighbor-joining tree
phylogeny
substitution
mega
neighbor-joining
modeltest
3 days ago by
poecile.pal
▴ 50
5
votes
7
replies
394
views
Most efficient way to run Diamond against a very very large database (i.e., NCBI's NR)?
protein
annotation
alignment
diamond
nr
3 days ago by
O.rka
▴ 650
0
votes
0
replies
102
views
Octopus advanced vcf guide: Example of overlapping vcf calls with *
vcf
spanning
alleles
octopus
3 days ago by
penington.j
• 0
3
votes
3
replies
241
views
Editing fasta headers
fasta
updated 3 days ago by
Ram
38k • written 4 days ago by
Zoe
• 0
0
votes
0
replies
133
views
Link products to their genes
RNA-SEQ
GO
edgeR
4 days ago by
Pegasus
▴ 80
0
votes
0
replies
130
views
Trajectory analysis using Monocle3 with Seurat sub-clustering
scRNA-seq
Trajectory
Seurat
analysis
Monocle3
4 days ago by
joonhong kwon
▴ 40
0
votes
0
replies
132
views
News:
The Canadian Bioinformatics Workshops are back for summer 2023
CBW
training
workshop
3 days ago by
bioinformatics.ca
• 0
0
votes
1
reply
185
views
Error parsing strand (?) from GFF line
assembly
updated 4 days ago by
cmdcolin
★ 2.9k • written 4 days ago by
hafiz.talhamalik
▴ 350
0
votes
3
replies
260
views
Sample size for population genetics
Population-genetics
sample-size
updated 4 days ago by
Jeremy Leipzig
21k • written 4 days ago by
zimmer.schweiz
• 0
1
vote
0
replies
143
views
List of Ongoing and Planned Long Read Sequencing studies?
long-read-sequencing
third-generation
updated 4 days ago by
Ram
38k • written 4 days ago by
Vincent Laufer
★ 2.6k
3
votes
8
replies
3.8k
views
counting the unmapped reads
RNA-Seq
updated 4 days ago by
chemkhi.ali13
• 0 • written 7.9 years ago by
fi1d18
★ 4.1k
0
votes
1
reply
169
views
SNP ID (rsID) to Chr no. and Position
Annotation
4 days ago by
Jewahir
• 0
0
votes
0
replies
128
views
how to plot distribution of SNPs across a set of genes based on distance between snp and gene
snp
genes
updated 4 days ago by
Ram
38k • written 4 days ago by
rheab1230
▴ 140
0
votes
0
replies
114
views
Reactome Species Comparison - analysis table
reactome
4 days ago by
a11msp
▴ 120
0
votes
1
reply
208
views
Discordinant aligment
Paired-end
HISAT2
updated 4 days ago by
Istvan Albert
97k • written 5 days ago by
ali
• 0
0
votes
1
reply
159
views
Using multimaping reads or unique reads on featurecounts?
featurecounts
HISAT2
updated 4 days ago by
GenoMax
127k • written 4 days ago by
omargmc.tak
• 0
0
votes
0
replies
130
views
News:
Next-Generation Sequencing Data Analysis: A Practical Introduction (May 3-5, 2023 in Munich, Germany)
NGS
DNA-Seq
calling
RNA-Seq
workshop
variant
4 days ago by
David Langenberger
9.9k
0
votes
1
reply
269
views
module and trait correlation for WGCNA
treatment
WGCNA
relation
microarray
module-treatment
updated 4 days ago by
andres.firrincieli
3.2k • written 6 days ago by
Shriyansh
• 0
3
votes
7
replies
273
views
1000 genomes hg38 with dbSNP rsid
1000genomes
dbsnp
updated 4 days ago by
Ram
38k • written 4 days ago by
Vince
▴ 150
0
votes
0
replies
101
views
How to import impute2.dosage files to analyse it in R (GWAS)
regression
GWAS
impute2
dosage
4 days ago by
Sebastian
• 0
5
votes
3
replies
435
views
What's the correct way to map to hg38 with alternative contigs?
NGS
bwa
5 days ago by
Belanov
▴ 10
6
votes
4
replies
196
views
Download NCBI compiled protein database for specific genus
protein
NCBI
updated 4 days ago by
GenoMax
127k • written 4 days ago by
saadleeshehreen
▴ 110
1,000 results • Page
3 of 20
Recent Votes
pyCirclize - Circular visualization in Python
Comment: My keys are all ENSEMBL, but R says they are not valid keys for ENSEMBL
Answer: How to remove duplicate reads after ONT basecalling from fastq.gz files
Talk from Aaron Lun on Orchestrating Single-Cell Analysis With Bioconductor
SSPACE for scaffolding
Answer: Snakemake workflow for trimmomatic
Answer: How to remove duplicate reads after ONT basecalling from fastq.gz files
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Comment: pyCirclize - Circular visualization in Python
by
moshi
▴ 100
Please install Biopython with v1.80 or higher. If biopython>=1.80, there should be no errors.
Comment: Gene family classification using RNA-seq data
by
Dion
• 0
well, I have been given the task to retrieve gene family/categorization. I found sveral papers on family classification, but no actual pack…
Comment: pyCirclize - Circular visualization in Python
by
karenkvn
▴ 40
Thank you for this wonderful programme! I am plotting a bacterial chromosome and find that when I plot the NC_000913 chromosome using the e…
Comment: SKAT in R
by
Eliza
▴ 20
@acvill can you sujjest maybe pther tools , methods for this ? ( also for every SNP i have data how many patients had the hetro/homozygous…
Comment: TCGA-BRCA tissue and RNAseq problem
by
pinheirofabiano
▴ 10
Go to https://portal.gdc.cancer.gov > Exploration > select TCGA and the cancer type you want > select case ID to download the files and hav…
Answer: Snakemake workflow for trimmomatic
by
antoine.fauchois92
• 0
Thank you very much for your reply ! It's working now !
Comment: Dependent p values
by
Eliza
▴ 20
@lchart I'm sorry for asking another of questions but I'm new to this field , can you please explain a little more how to use SKAT , saige…
Comment: How to deal with the probe id mapping to multiple gene ids?
by
dare_devil
★ 1.7k
similar question [here][1], [here][2] and [here][3] [1]: https://support.bioconductor.org/p/54838/ [2]: https://support.bioconductor.…
Comment: How to deal with the probe id mapping to multiple gene ids?
by
dare_devil
★ 1.7k
@genomax I have used the same platform file only. If you look at probe id and their corresponding `Gene Symbol` or `ENTREZ_GENE_ID` you can…
Comment: How to deal with the probe id mapping to multiple gene ids?
by
GenoMax
127k
Where are you seeing this? [Platform file for this array][1] on GEO has these names uniquely assigned. [1]: https://www.ncbi.nlm.nih.go…
Comment: My keys are all ENSEMBL, but R says they are not valid keys for ENSEMBL
by
rpolicastro
11k
`Org.Mm.eg.db` is the mouse organism database, but your ENSEMBL IDs are for human genes. Mouse ensembl ids start with `ENSMUSG`. You proba…
Comment: Snakemake doesn't recognize output files even though they are created
by
DdogBoss
• 0
Yes, it completed the dry run. What other information do you need?
Comment: LDSC correlation calculate confidence intervals
by
YL
▴ 10
Based on my personal thought, I think the se from LDSC output probably needs to be transferred using Delta method based on Fisher transform…
Comment: LDSC correlation calculate confidence intervals
by
YL
▴ 10
Hi, Are you able to find an answer for this? I have the exact question! YL
Answer: Gene duplicate
by
ATpoint
71k
Use use ensembID_geneName as gene identifier to avoid that. These duplicate names exist as genes so removing them is somewhat not really da…
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