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121,981 results • Page
638 of 2440
Sort: Rank
Rank
Views
Votes
Replies
4
votes
9
replies
3.0k
views
extracting ensembl gene id or entrez gene id from a gene annotation file for BINGO app of cytoscape
BINGO
analysis
RNA-seq
R
GO
updated 4.3 years ago by
Pratik
★ 1.1k • written 4.3 years ago by
microorganism_001
▴ 30
1
vote
0
replies
1.8k
views
Tutorial:
How to: make Camellia sinensis var. sinensis (black tea) custom annotation files for BINGO Cytoscape
bingo
cytoscape
4.3 years ago by
Pratik
★ 1.1k
3
votes
5
replies
2.3k
views
Change format of counts of single cell RNA-seq data from csv to mtx format from synapse.org
single
RNA-seq
cell
4.3 years ago by
ali_karimnezhad
▴ 20
1
vote
2
replies
1.9k
views
R package DiffBind -- Error: No sites have activity greater than minMaxval
DiffBind
4.3 years ago by
alexmondaini
▴ 20
0
votes
2
replies
1.1k
views
Best method of integrative analysis for GWAS and differential expression data
GWAS
4.3 years ago by
Shicheng Guo
★ 9.6k
2
votes
7
replies
6.2k
views
6 follow
How to remove samples with no genotypes from vcf
VCF
updated 3.0 years ago by
Vanish007
▴ 50 • written 4.3 years ago by
moxu
▴ 510
0
votes
6
replies
3.4k
views
EdgeR compare multiple groups in a 1 vs other comparison?
Expression
R
EdgeR
Differential
4.3 years ago by
shanasabri
▴ 40
3
votes
8
replies
5.0k
views
how to batch download SARS-CoV-2 sequences data from NCBI?
sequence
sequencing
updated 4.3 years ago by
GenoMax
154k • written 4.8 years ago by
2001linana
▴ 40
2
votes
3
replies
3.9k
views
Extremely low bootstrap values for phylogenetic tree
bootstrap
phylogenetic
tree
updated 4.3 years ago by
Michael
56k • written 4.3 years ago by
alicecol
▴ 20
0
votes
0
replies
909
views
Job:
PhD position: bioinformatics analysis of omics data in frontotemporal dementia
genetics
phd
updated 2.3 years ago by
Ram
45k • written 4.3 years ago by
WouterDeCoster
48k
0
votes
0
replies
844
views
Job:
JOB: Data Ontologist - Remote
data-ontologist
updated 2.9 years ago by
Ram
45k • written 4.3 years ago by
kathy.pearson
• 0
0
votes
0
replies
821
views
Job:
JOB: Bioinformatician - Remote
bioinformatics-scientist
updated 2.9 years ago by
Ram
45k • written 4.3 years ago by
kathy.pearson
• 0
0
votes
0
replies
748
views
Tool:
Unicorn Papers - Top ‱ cited papers from PUBMED
citation
paper
research
PUBMED
bibliometrics
4.3 years ago by
Lukasz Kozlowski
• 0
1
vote
7
replies
2.6k
views
ENA: Same ERR for multiple samples
ENA
updated 4.3 years ago by
GenoMax
154k • written 4.3 years ago by
atorreso
▴ 130
2
votes
5
replies
2.0k
views
filtering vcfs by at least lof variants
lof
4.3 years ago by
storm1907
▴ 30
2
votes
12
replies
4.8k
views
prefetch in linux
RNA
coding
data
non
SRR
updated 4.3 years ago by
ATpoint
89k • written 4.3 years ago by
reza
• 0
0
votes
0
replies
869
views
News:
Online Training - DNA Methylation
DNAmethylation
epigenetics
updated 4.3 years ago by
Ram
45k • written 4.3 years ago by
Physalia-courses
★ 2.6k
0
votes
8
replies
1.9k
views
Convert "chrom:position" to gene name
gene
R
updated 4.3 years ago by
Ram
45k • written 4.3 years ago by
storm1907
▴ 30
0
votes
0
replies
1.4k
views
Have a question about run jellyfish in many directories with different number of zipped fasta files
bash
4.3 years ago by
schlogl
▴ 180
0
votes
0
replies
768
views
CNV detection from populational allele frequency data
CNV
genetics
populational
4.3 years ago by
Eugene A
▴ 190
0
votes
0
replies
644
views
Using R package to implement Bayesian phase I/II dose-finding design for three outcomes
clinic
biostatistics
trial
dose-finding
Bayesian
4.3 years ago by
Ran
• 0
2
votes
5
replies
3.8k
views
plink2 reorder alleles by fasta reference
PLINK2
updated 4.3 years ago by
chrchang523
11k • written 4.3 years ago by
Filago
▴ 110
0
votes
7
replies
3.6k
views
Diffbind:dba.plotProfile error: each range must have an end that is greater or equal to its start minus one
Diffbind
Bioconductor
R
updated 4.3 years ago by
Ram
45k • written 4.3 years ago by
K_QIN
• 0
1
vote
2
replies
1.1k
views
aligning reads against shorter region
alingment
Bowtie2
4.3 years ago by
Juke34
9.3k
0
votes
8
replies
2.9k
views
Logfold change (Limma Package) in methylation association studies
limma
logfoldchange
updated 15 months ago by
Papyrus
★ 3.1k • written 4.3 years ago by
ritz
▴ 10
0
votes
0
replies
1.3k
views
How to run coverage2cytosine
Bismark
coverage2cytosine
DNA-methylation
4.3 years ago by
linelr
▴ 40
0
votes
0
replies
1.4k
views
Error in (1 - h) * qs[i] : non numeric argument to binary operator
Rstudio
updated 4.3 years ago by
Ram
45k • written 4.3 years ago by
Claire
• 0
1
vote
1
reply
931
views
Job:
BIG DATA MANAGER AND BACK-END DEVELOPER (M/W)
DATA
updated 4.3 years ago by
Ram
45k • written 4.3 years ago by
hr
• 0
0
votes
0
replies
727
views
How to generate a file where we get the list of common Genes expressed in each combination in a venn diagram
venndiagram
R
DEG
4.3 years ago by
aka
▴ 10
2
votes
3
replies
1.4k
views
What is the minimum read lenght to filter in modern samples?
minimum
lenght
DNA
modern
read
updated 4.3 years ago by
GenoMax
154k • written 4.3 years ago by
lud_0911
• 0
0
votes
3
replies
1.3k
views
Identifying samples from COSMIC/cBioportal etc with only a specific driver mutation
cancer
genomics
updated 4.3 years ago by
Ram
45k • written 4.3 years ago by
John
• 0
0
votes
3
replies
1.5k
views
How to rename the fasta header in a multifasta file
fasta
seqkit
updated 4.3 years ago by
cpad0112
21k • written 4.3 years ago by
Anisur Rahman
▴ 80
0
votes
0
replies
949
views
Job:
Junior Chemical Engineer with Techno-Economic Assessment Skills at DTU Biosustain
AspenPlus
chemical
engineering
SuperPro
biosustain
DTU
4.3 years ago by
info
▴ 80
0
votes
1
reply
1.0k
views
genome build for --extract bed1 file in PLINK
build
bed
plink
genome
updated 4.3 years ago by
chrchang523
11k • written 4.3 years ago by
eosimo
• 0
0
votes
0
replies
679
views
Would someone know why unappropriate "genomeSAindexNbases" value causes Segmentation Fault?
Indexing
STAR
4.3 years ago by
maxdlf12
• 0
1
vote
3
replies
2.2k
views
Custom genome installation in SigProfileMatrixGenerator
genome
custom
SigProfilerMatrixGenerator
2.5 years ago by
Ian
6.1k
1
vote
5
replies
1.4k
views
construction of a database of bacterial genomic and protein sequences
sql
database
mysql
updated 4.3 years ago by
Ram
45k • written 4.3 years ago by
Debut
▴ 20
1
vote
3
replies
1.9k
views
organism source of isolation and country source
sequence
genome
updated 4.3 years ago by
priyasanthanam1997
• 0 • written 9.4 years ago by
mlagadodji
• 0
3
votes
3
replies
2.9k
views
Remove prefix chrom:position before rsIDs
plink
regex
bim
snp
updated 4.3 years ago by
Friederike
9.0k • written 8.5 years ago by
ISB
▴ 30
10
votes
10
replies
4.0k
views
6 follow
How do I make a ComplexHeatmap from this dataframe?
scaling
scale
heatmap
4.3 years ago by
Pratik
★ 1.1k
0
votes
3
replies
2.1k
views
Corrupted dbsnp-vcf?
BCFTOOLS
VCF
Imputation
4.3 years ago by
Filago
▴ 110
0
votes
0
replies
2.0k
views
Class code selection ; GffCompare ; Novel transcript
codes
GffCompare
Class
RNA-Seq
StringTie
4.3 years ago by
SKY
▴ 60
5
votes
2
replies
1.6k
views
Bedtools intersect, order of input bed files result in different outputs?
bedtools
updated 4.3 years ago by
zx8754
12k • written 4.3 years ago by
kstangline
▴ 110
1
vote
4
replies
1.5k
views
Incorrect Gene coordinates in GBFF File
Gene
Coordinate
GBFF
4.3 years ago by
amar.kant20422
• 0
0
votes
1
reply
946
views
Tool to find first stop-codon in a given ORF
python
codon
ORF
stop
R
updated 4.3 years ago by
lieven.sterck
16k • written 4.3 years ago by
Alexandra
• 0
1
vote
6
replies
6.2k
views
syntax error near unexpected token `('
script
shell
updated 4.3 years ago by
Ram
45k • written 4.3 years ago by
hiroyuki.kato.911
• 0
1
vote
1
reply
1.3k
views
extract only 5' information of BAM file
BAM
updated 4.3 years ago by
Carlo Yague
9.0k • written 4.3 years ago by
dahun73
▴ 10
2
votes
2
replies
1.2k
views
Bacterial metatranscriptomics with DESEQ2?
metatranscriptomics
RNA-SEQ
4.3 years ago by
shail.nair05
▴ 20
43
votes
19
replies
14k
views
9 follow
Basic Bam File Annotation
bedtools
bam
htseq
annotation
rseqc
4.3 years ago by
Jeremy Leipzig
23k
0
votes
0
replies
1.0k
views
high resolution deconvolution problem
cibersort
deconvolution
rna-seq
4.3 years ago by
demoraesdiogo2017
▴ 120
121,981 results • Page
638 of 2440
Recent Votes
Answer: Dorado in PowerShell on Windows
Answer: Nextflow MultiQC runs multiple times due to FASTQC zip name collisions
Comment: When to merge RNA-seq files with multiple sequencing lanes
Answer: When to merge RNA-seq files with multiple sequencing lanes
Answer: Deeptools PlotProfile
Comment: GUI commercial software for 10x single cell gene expression analysis
Answer: Quantification using salmon in alignment-based mode after minimap2 run
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Comment: Dorado in PowerShell on Windows
by
sbissi102
▴ 10
Yes, I found all the barcodes, but could working on WSL affect the basecalling results?
Answer: Nextflow MultiQC runs multiple times due to FASTQC zip name collisions
by
DdogBoss
▴ 20
Since I was running in stub-run mode, the solution was to make unique names for the FASTQC process like this: touch ${sample}_${rea…
Answer: GUI commercial software for 10x single cell gene expression analysis
by
Nicole
• 0
Many researchers use the CLC Genomics Workbench and Ingenuity Pathway Analysis. CLC can be used to do secondary analysis for your dataset a…
Comment: Diffbind or DESEQ2 Chipseq data
by
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• 0
For example, in this image, the red area represents the differentially acetylated region returned by DiffBind. The green area is a promoter…
Comment: GUI commercial software for 10x single cell gene expression analysis
by
GenoMax
154k
Interesting pricing model : https://www.nygen.io/pricing Depending on user needs could be used (or certainly tested) for free. And this is …
Answer: Dorado in PowerShell on Windows
by
GenoMax
154k
> yet I received 96 fastq files in demux_out that corresponded to the 96 barcodes. Additionally, I'm unsure if I should re-trim the fastq f…
Comment: Dorado in PowerShell on Windows
by
jared.andrews07
★ 19k
If you're using WSL, PowerShell has nothing to do with this. It also sounds like a better question for your sequencing facility/provider ra…
Answer: GUI commercial software for 10x single cell gene expression analysis
by
Arup Ghosh
3.4k
Except for GSEA, the app from Nygen can perform most of the analysis using a tool similar to Scanpy. Docs: https://www.nygen.io/knowledge-…
Comment: Quantification using salmon in alignment-based mode after minimap2 run
by
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7.1k
Hi Assa, Unless you have an additional use for the intermediate BAM file, I would recommend the read-based quantification mode. It is s…
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by
GenoMax
154k
> Single-cell analysis is a complex topic and it's easy to make wonky conclusions from wonky analysis. Let us set aside a discussion of op…
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by
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8.0k
How much short read coverage do other studies have which you want to replicate? Are those studies using whole genomes creating using long r…
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by
firestar
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They have 10X cellranger output (ie; counts). They want to perform the standard sort of Seurat/Scanpy analyses: QC, filtering, integration,…
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▴ 830
Can you provide more information on the use case? If they want to generate data for a publication I would argue that the majority of the GU…
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by
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I believe using `ignoreTxVersion = TRUE` is supposed to take care of that
Comment: Which aligner is more suitable for ONT R10.4.1 Dorado-corrected reads: minimap2
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▴ 10
Just a very brief summary of the results using the latest versions of minimap2 and winnowmap (by `samtools stats`). It seems that winnowma…
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