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
Profile
Posts
Awards
Show
all
questions
tools
blogs
news
tutorials
forum
answers
comments
Showing :
questions
16
votes
5
replies
8.3k
views
Which genome fasta file and GTF file to be used in the RNA-Seq analysis
RNA-Seq
gencode
updated 4 months ago by
Ram
43k • written 4.8 years ago by
wangdp123
▴ 340
1
vote
1
reply
2.2k
views
NS, AC, AN and AF in VCF file
VCF
updated 8 months ago by
Mwangana
• 0 • written 21 months ago by
wangdp123
▴ 340
0
votes
1
reply
1.7k
views
Greengenes homepage
Greengenes
updated 3.0 years ago by
h.mon
35k • written 3.0 years ago by
wangdp123
▴ 340
0
votes
1
reply
1.3k
views
Running Snakemake on the computing cluster
Snakemake
HPC
updated 3.0 years ago by
Ram
43k • written 3.1 years ago by
wangdp123
▴ 340
0
votes
2
replies
1.4k
views
How does featurecounts deal with the output from Bowtie?
RNA-Seq
Bowtie
featureCounts
updated 3.6 years ago by
swbarnes2
14k • written 3.6 years ago by
wangdp123
▴ 340
0
votes
1
reply
2.0k
views
Use PLINK2 to extract the specific variants
PLINK2
updated 3.7 years ago by
chrchang523
10k • written 3.8 years ago by
wangdp123
▴ 340
2
votes
1
reply
1.5k
views
The number of biological replicates and technical replicates in proteomics experiments
proteomics
replicates
updated 4.0 years ago by
JC
13k • written 4.0 years ago by
wangdp123
▴ 340
0
votes
0
replies
971
views
Codon bias calculation tool
codon bias
4.0 years ago by
wangdp123
▴ 340
1
vote
1
reply
1.2k
views
GTF file in Ensembl database for RNA-Seq analysis
RNA-Seq
GTF
updated 4.0 years ago by
Biostar
20 • written 5.0 years ago by
wangdp123
▴ 340
0
votes
1
reply
653
views
The codon table for all contigs/scaffolds/chromosomes of all genomes from Ensembl databases
Ensembl
codon
updated 4.1 years ago by
Ben_Ensembl
★ 2.4k • written 4.1 years ago by
wangdp123
▴ 340
2
votes
1
reply
2.2k
views
Some questions regarding DESeq2
DESeq2
RNA-Seq
updated 4.1 years ago by
dsull
★ 5.9k • written 4.1 years ago by
wangdp123
▴ 340
0
votes
0
replies
1.1k
views
Perform differential circular RNA expression
circRNA
CIRCexplorer2
4.2 years ago by
wangdp123
▴ 340
1
vote
2
replies
3.1k
views
Paired-end metagenomics data for MEGAN analysis
MEGAN
metagenomics
updated 4.2 years ago by
onestop_data
▴ 330 • written 4.5 years ago by
wangdp123
▴ 340
3
votes
9
replies
1.9k
views
The error generated by Rsamtools
Rsamtools
Rsubread
updated 4.2 years ago by
Gordon Smyth
★ 7.1k • written 4.2 years ago by
wangdp123
▴ 340
0
votes
1
reply
1.4k
views
The inclusion or exclusion of NR transcripts in RefSeq gene annotation in the RNA-Seq analysis
RNA-Seq
RefSeq
updated 4.2 years ago by
Biostar
20 • written 6.1 years ago by
wangdp123
▴ 340
3
votes
4
replies
1.2k
views
featurecounts output changes the underscores in the sample name into dots
featurecounts
updated 4.3 years ago by
Gordon Smyth
★ 7.1k • written 4.3 years ago by
wangdp123
▴ 340
1
vote
1
reply
1.2k
views
Deal with the time-course RNA-Seq datasets
RNA-Seq
time-course
updated 4.8 years ago by
andrew.j.skelton73
6.6k • written 4.8 years ago by
wangdp123
▴ 340
0
votes
1
reply
907
views
The number of peaks in microRNA-Seq trimmed data
RNA-Seq
microRNA
updated 4.8 years ago by
jperezboza
▴ 20 • written 4.8 years ago by
wangdp123
▴ 340
2
votes
1
reply
1.4k
views
Is calcuNormFactors necessary in the calculation of RPKM?
RNA-Seq
edgeR
RPKM
updated 4.8 years ago by
ATpoint
82k • written 4.8 years ago by
wangdp123
▴ 340
5
votes
6
replies
2.7k
views
Primer sequences in fastq files from 16s rRNA experiment
16s rRNA
mothur
updated 5.0 years ago by
gb
★ 2.2k • written 5.0 years ago by
wangdp123
▴ 340
0
votes
2
replies
1.5k
views
GATK best practice step-by-step command lines for Arabidopsis DNA-Seq data analysis
DNA-Seq
Arabidopsis
GATK
updated 5.1 years ago by
Pierre Lindenbaum
161k • written 5.1 years ago by
wangdp123
▴ 340
2
votes
1
reply
4.1k
views
How to calculate the mapping rate from BAM files generated from BWA
BWA
5.1 years ago by
wangdp123
▴ 340
8
votes
8
replies
2.7k
views
How to collect the phastCons and phyloP data from Ensembl
Ensembl
phastCons
phyloP
updated 5.2 years ago by
Emily
23k • written 5.2 years ago by
wangdp123
▴ 340
0
votes
1
reply
4.8k
views
STAR+Cufflinks for RNA-Seq analysis
RNA-Seq
STAR
Cufflinks
updated 5.2 years ago by
Istvan Albert
100k • written 5.2 years ago by
wangdp123
▴ 340
1
vote
4
replies
1.3k
views
How to link the assembly accession with the chromosome accession for prokaryotic representative genomes
NCBI
prokaryotic genomes
5.4 years ago by
wangdp123
▴ 340
0
votes
1
reply
4.4k
views
Smart-seq2 single-cell RNA-Seq
RNA-Seq
Smart-seq2
single-cell
updated 5.5 years ago by
Kristoffer Vitting-Seerup
★ 4.0k • written 5.5 years ago by
wangdp123
▴ 340
3
votes
3
replies
4.4k
views
The difference between heatmap.2 and pheatmap
heatmap
RNA-Seq
updated 5.5 years ago by
Kevin Blighe
87k • written 5.5 years ago by
wangdp123
▴ 340
3
votes
6
replies
2.9k
views
Can snakemake work with multiple nodes from HPC?
snakemake
HPC
5.5 years ago by
wangdp123
▴ 340
1
vote
4
replies
2.0k
views
Use OrthoDB to retrieve the orthologs between human and bacteria
orthologs
orthoDB
updated 5.5 years ago by
Christophe Dessimoz
▴ 740 • written 5.6 years ago by
wangdp123
▴ 340
0
votes
1
reply
2.2k
views
The m6A-Seq analysis
m6A-Seq
ChIP-Seq
updated 5.6 years ago by
ZZzzzzhong
▴ 240 • written 5.9 years ago by
wangdp123
▴ 340
0
votes
1
reply
1.0k
views
q_value in cuffdiff results
RNA-Seq
Cuffdiff
updated 5.6 years ago by
Biostar
20 • written 5.6 years ago by
wangdp123
▴ 340
2
votes
1
reply
2.4k
views
The tools to plot the saturation curve for RNA-Seq
RNA-Seq
updated 5.6 years ago by
Martombo
★ 3.1k • written 5.6 years ago by
wangdp123
▴ 340
1
vote
5
replies
2.5k
views
"Segmentation fault" error from running align function in Rsubread package
RNA-Seq
Rsubread
updated 5.7 years ago by
i.sudbery
19k • written 5.7 years ago by
wangdp123
▴ 340
0
votes
5
replies
2.4k
views
The failed compilation of Rsubread
Rsubread
RNA-Seq
5.8 years ago by
wangdp123
▴ 340
6
votes
3
replies
7.4k
views
What is the difference between single-cell RNA-Seq and typical RNA-Seq in terms of data analysis procedure
single-cell
RNA-Seq
updated 5.9 years ago by
Devon Ryan
104k • written 5.9 years ago by
wangdp123
▴ 340
4
votes
2
replies
1.5k
views
samtools and I/O redirection
samtools
5.9 years ago by
wangdp123
▴ 340
0
votes
4
replies
3.2k
views
The errors reported when running snakemake file with log function
snakemake
updated 5.9 years ago by
Devon Ryan
104k • written 5.9 years ago by
wangdp123
▴ 340
2
votes
1
reply
4.1k
views
The logging file for snakemake
snakemake
log
5.9 years ago by
wangdp123
▴ 340
0
votes
1
reply
2.5k
views
How to normalize the bam files for RNA-Seq samples for visualization
RNA-Seq
normalization
visualize
updated 6.0 years ago by
trausch
★ 1.9k • written 6.0 years ago by
wangdp123
▴ 340
0
votes
0
replies
924
views
The estimate index of codon bias
codon bias
6.1 years ago by
wangdp123
▴ 340
0
votes
1
reply
1.0k
views
Cluster genes based on their codon usage
codon usage
cluster gene
6.2 years ago by
wangdp123
▴ 340
0
votes
1
reply
1.2k
views
Process the VCF files for a huge number of samples
VCF
SNP
InDel
Exome-Seq
6.2 years ago by
wangdp123
▴ 340
9
votes
3
replies
14k
views
How to find the hub genes in the gene co-expression network constructed by WGCNA
WGCNA
hub gene
updated 6.3 years ago by
Kevin Blighe
87k • written 6.3 years ago by
wangdp123
▴ 340
39
votes
25
replies
23k
views
8 follow
The RNA-Seq data input for WGCNA in terms of gene co-expression network construction
WGCNA
network
updated 6.5 years ago by
Kevin Blighe
87k • written 6.5 years ago by
wangdp123
▴ 340
0
votes
0
replies
1.1k
views
The strategy to annotate the transcriptional factors from transcripts
TF
annotation
6.6 years ago by
wangdp123
▴ 340
3
votes
3
replies
2.5k
views
Draw the phylogeny from RNA-Seq data
RNA-Seq
phylogeny
species
tissues
treatment
updated 6.7 years ago by
Biostar
20 • written 6.8 years ago by
wangdp123
▴ 340
1
vote
2
replies
1.2k
views
How to understand "between_species_paralog" in Ensembl and EnsemblGenomes
Ensembl
paralogs
EnsemblGenomes
updated 6.8 years ago by
Emily
23k • written 6.8 years ago by
wangdp123
▴ 340
1
vote
1
reply
4.8k
views
How to rank genes prepared for GSEA analysis with TopGO
TopGO
GSEA
RNA-Seq
updated 6.8 years ago by
BioinfGuru
★ 1.7k • written 6.8 years ago by
wangdp123
▴ 340
0
votes
1
reply
1.9k
views
How to obtain more GO terms for transcripts
Gene ontology
de novo assembly
updated 6.9 years ago by
Whoknows
▴ 960 • written 6.9 years ago by
wangdp123
▴ 340
4
votes
11
replies
3.9k
views
Software for GO enrichment based on own DEGs and GO annotation.
GO
enrichment
updated 6.9 years ago by
mforde84
★ 1.4k • written 6.9 years ago by
wangdp123
▴ 340
57 results • Page
1 of 2
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