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122,007 results • Page
657 of 2441
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Votes
Replies
3
votes
1
reply
1.9k
views
how to define open-pangenome?
python
fasta
genome
dna
clustering
updated 4.4 years ago by
Nelly
▴ 30 • written 4.5 years ago by
Kumar
▴ 120
1
vote
3
replies
1.2k
views
edgeR batch correction
edger
batch
4.4 years ago by
barix
▴ 20
0
votes
0
replies
673
views
Code for simulation of data sets
simulation
updated 4.4 years ago by
Ram
45k • written 4.4 years ago by
lorenzo
• 0
0
votes
1
reply
1.9k
views
Extracting Read and mates having variant positions Using BAM file vcf file in Python using pysam/ bamnostics
NGS_DATA
PYSAM
Python
BAM_FILE
updated 4.3 years ago by
Ram
45k • written 4.4 years ago by
Hassan
• 0
0
votes
0
replies
957
views
Fatal error: exit code 1 () using make.shared
galaxy
metadata
metagenomics
mothur
error
4.4 years ago by
elfellah.aymane00
• 0
1
vote
2
replies
1.3k
views
how to identify if a contig.fa file comes from IDBA or Spades?
assembler
4.4 years ago by
leranwangcs
▴ 150
0
votes
9
replies
2.8k
views
How get density plot TSS region for genes of interest
Chipseq
updated 14 months ago by
QX
▴ 80 • written 4.4 years ago by
BISEP
▴ 10
2
votes
5
replies
2.1k
views
Best way to handle samples with both single end and paired end?
RNA-Seq
updated 4.4 years ago by
ATpoint
89k • written 4.4 years ago by
ichbinlynn93
▴ 30
1
vote
9
replies
3.3k
views
RNAseq: Modify .fasta and .gtf files to add recombinant protein sequence
reference
protein
modify
recombinant
4.4 years ago by
Pavlos
• 0
0
votes
0
replies
935
views
How can I summarize Log2 Fold Change values for many genes within a treatment group?
fold-change
updated 2.1 years ago by
Ram
45k • written 4.4 years ago by
sagrant
▴ 10
0
votes
1
reply
1.5k
views
Extract reads mapped within chosen intronic region from BAM file (no junctions)
bedtools
RNA-seq
samtools
updated 4.4 years ago by
Pierre Lindenbaum
166k • written 4.4 years ago by
gspirito
▴ 10
1
vote
0
replies
740
views
ComBat before or after filtering
ComBat
batchadjustment
microarray
4.4 years ago by
averagelife
▴ 10
1
vote
5
replies
1.8k
views
Using np to target subsampling
nonpareil
coassembly
metagenomics
updated 4.4 years ago by
h.mon
35k • written 4.4 years ago by
andrew
▴ 10
1
vote
2
replies
1.5k
views
Picard LiftoverVcf warning - input malformated
vcf
picard
warning
error
liftover
4.4 years ago by
Yuri
• 0
2
votes
2
replies
1.2k
views
Forum:
reporting differentially expressed genes in a global RNA-seq study
DESeq2
RNA-seq
expression
heatmaps
transcriptomics
4.4 years ago by
thomas.welch
▴ 50
0
votes
3
replies
2.8k
views
Installing stringr after upgrading from Ubuntu 18.04 to 20.04
18.04
20.04
stringr
require
error
updated 4.4 years ago by
Jean-Karim Heriche
27k • written 4.4 years ago by
tul66893
• 0
1
vote
4
replies
1.5k
views
WGCNA -RNAseq data- strong correlation with TIN
WGCNA
TIN
RNAsequencing
updated 4.4 years ago by
cera.fisher
▴ 10 • written 4.4 years ago by
Geor
• 0
1
vote
5
replies
2.3k
views
Unable to download R package
BiocManager
updated 4.4 years ago by
GenoMax
154k • written 4.4 years ago by
Kira
• 0
0
votes
0
replies
688
views
Is there a limit on the number of query in cir_query()?
R
SMILES
webchem
4.4 years ago by
Arindam Ghosh
▴ 550
2
votes
8
replies
4.9k
views
How to produce a heatmap by keeping the original data and a log color scale?
R
heatmap
ggplot2
visualization
updated 4.4 years ago by
cpad0112
21k • written 4.4 years ago by
anikcropscience
▴ 270
0
votes
0
replies
1.4k
views
Memory issue with my PC when trying to convert PLINK to TreeMix
STACKS
bash
vcf
plink
treemix
4.4 years ago by
hemr3
▴ 10
0
votes
11
replies
3.9k
views
different sequencing depths for Input and IP in ChIP-Seq
depth
ChIP-Seq
sequencing
normalisation
4.4 years ago by
Genestar
• 0
0
votes
1
reply
2.3k
views
Seurat - setting random seed for FindNeighbors, FindClusters
seurat
clustree
4.4 years ago by
bsmith030465
▴ 250
1
vote
0
replies
644
views
Snakemake/Google-Life-Sciences aggregate funtion issue
snakemake
Google-Life-Sciences
4.4 years ago by
Stephan
▴ 10
6
votes
8
replies
5.8k
views
Modeling Chip-Seq Background Using Edger'S Glm Functionality?
chip-seq
edger
updated 4.4 years ago by
ATpoint
89k • written 13.1 years ago by
Ryan Thompson
★ 3.7k
0
votes
2
replies
1.0k
views
how to get the assembly number of an array with a script
ncbi
4.4 years ago by
Debut
▴ 20
0
votes
2
replies
1.8k
views
How exactly does diffBind count reads?
atac-seq
diffbind
updated 2.3 years ago by
Ram
45k • written 4.5 years ago by
iamjli
▴ 10
1
vote
1
reply
3.0k
views
Diffbind fold difference calculation
diffbind
normalization
fold
updated 4.4 years ago by
Rory Stark
★ 2.1k • written 4.5 years ago by
Amy
• 0
4
votes
10
replies
3.3k
views
Beagple 5.2 phasing error
vcf
beagle
plink
phasing
updated 4.1 years ago by
4galaxy77
2.9k • written 4.4 years ago by
pmc.sa
▴ 40
2
votes
2
replies
2.2k
views
Understanding PCA plot from DiffBind
diffbind
pca
chip-seq
updated 4.4 years ago by
Rory Stark
★ 2.1k • written 4.4 years ago by
Marco Pannone
▴ 810
0
votes
1
reply
1.6k
views
Error executing process > 'read_clustering (1)' In NanoCLUST
NanoporeSequencing
16srrna
NanoClust
updated 4.4 years ago by
Carambakaracho
★ 3.3k • written 4.4 years ago by
twinklemishra0892
▴ 10
0
votes
3
replies
1.4k
views
i need help mouse prostata single cell data
scRNAseq
porstate
mouse
updated 4.4 years ago by
h.mon
35k • written 4.4 years ago by
rodriguezcruz0010
• 0
1
vote
4
replies
2.5k
views
How to plot chipseq peak relative to TSS for some genes ?
chipseq
R
plotwithR
TSS
peak
updated 4.4 years ago by
Carambakaracho
★ 3.3k • written 4.4 years ago by
Sarah
▴ 10
0
votes
0
replies
607
views
Transforming a straight image #1 into bent/curved form and align with bent/curved image #2.
image
bent
imageprocessing
transform
align
4.4 years ago by
karolina.kowalska9696
• 0
2
votes
5
replies
9.4k
views
Using Samtools on a Mac terminal
alignment
updated 4.4 years ago by
Michael
56k • written 5.0 years ago by
valerie.borde
▴ 10
0
votes
1
reply
1.4k
views
Hierarchical clustering using GISTIC 2.0 result
clustering
CNV
hierarchical
GISTIC
CNA
updated 4.4 years ago by
German.M.Demidov
★ 3.0k • written 4.4 years ago by
jhy
▴ 10
0
votes
4
replies
3.1k
views
How the calculated the decay line by nonlinear regression to the LD plot?
Linkage
SNP
Disequilibrium
Population
4.4 years ago by
Kumar
▴ 170
2
votes
5
replies
5.0k
views
MCScanX not read input files
MCScanX
synteny
blastp
gff
updated 4.4 years ago by
pmcarlton
▴ 30 • written 7.7 years ago by
a.e.wright
▴ 10
0
votes
0
replies
1.1k
views
GSEA error message help: Empty Gene Line
GenePattern
GSEA
4.4 years ago by
Genosa
▴ 160
3
votes
2
replies
1.7k
views
"orthomcl" python multithreading loading to mysql database table
mysql
multiprocessing
orthomcl
multithreading
updated 4.4 years ago by
dariober
15k • written 4.4 years ago by
seok1213neo
▴ 40
0
votes
1
reply
1.1k
views
how to obtain annotation file from Genbank file
annotation
4.4 years ago by
wes
▴ 90
0
votes
0
replies
1.0k
views
Problem plotting GROMACS graphics in xmgrace
grace
gromacs
md
graphic
4.4 years ago by
pehenriquejp
• 0
0
votes
5
replies
1.7k
views
Protein fasta file header shorten
header
shorten
fasta
updated 4.4 years ago by
Dunois
★ 2.9k • written 4.4 years ago by
wang-yanfang
• 0
0
votes
0
replies
630
views
what the orientation of segmental duplications means in UCSC?
duplication
segmental
4.4 years ago by
greatgene719
▴ 10
0
votes
3
replies
3.6k
views
What are the columns from pysam fetch?
pysam
updated 4.4 years ago by
i.sudbery
22k • written 4.4 years ago by
Eric
• 0
1
vote
2
replies
1.2k
views
how to download automatically complete genomes with biopython on ncbi
ncbi
biopython
updated 2.6 years ago by
Ram
45k • written 4.4 years ago by
Debut
▴ 20
1
vote
4
replies
1.6k
views
What is the procedure to install tophat
Tophat
updated 4.4 years ago by
GenoMax
154k • written 4.4 years ago by
inayatmathe
• 0
3
votes
4
replies
2.6k
views
How to merge variants for the same samples from different vcf files?
vcf
4.4 years ago by
steve
★ 3.5k
2
votes
3
replies
1.8k
views
download fastq based on fasta file of bacteria genomes
bacteria
SNPcalling
fastq
fasta
4.4 years ago by
ali_karimnezhad
▴ 20
4
votes
3
replies
1.8k
views
BioPax vs. OBO and ontologies
obo
database
ontologies
graph
biopax
updated 4.4 years ago by
gary.bader
▴ 20 • written 4.4 years ago by
danaru
• 0
122,007 results • Page
657 of 2441
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Comment: GUI commercial software for 10x single cell gene expression analysis
Answer: GUI commercial software for 10x single cell gene expression analysis
Answer: GUI commercial software for 10x single cell gene expression analysis
Answer: GUI commercial software for 10x single cell gene expression analysis
GUI commercial software for 10x single cell gene expression analysis
Answer: FACS quality control based on size and doublet detection in scRNA-seq
Answer: FACS quality control based on size and doublet detection in scRNA-seq
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Comment: GUI commercial software for 10x single cell gene expression analysis
by
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103k
A comment on: "*Wonky analysis is possible even with open-source R libraries.*" True - and arguably, the risk of a wonky analysis is actua…
Comment: GUI commercial software for 10x single cell gene expression analysis
by
GenoMax
154k
`Trailmaker` likely only supports Parse's evercode data. <br> `BioTuring` does not appear to have published pricing. <br> `Rosalind` appear…
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> I performed a standard proteomics screening workflow What database did you use to search against? Perhaps you are using an old (not so c…
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No, it's unrelated. Doublets in 10x happen if two cells get enclosed into the same GEM droplet. This has nothing to do with how flow cytome…
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8.0k
Wow, thats too long. How much RAM does your machine have, it is likely swapping
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Note that UniProtKB accession numbers do not have any meaning. While most ACs starting with A0A5* are indeed unreviewed (i.e. from TrEMBL),…
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Thank you but sorry, your answer sounds very AI-based...
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For basic analysis, discard anything that isn't from Swiss-Prot. Your statistics and pathway analysis should only be based on reliable, ann…
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For a 200-SNP panel at your sample throughput, I would recommend an amplicon-based targeted sequencing approach. The workflow involves des…
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There are *a lot* of factors that can impact the number of identified SNPs. These include things like: - Evolutionary distance from samp…
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Your proposed workflow is indeed sound, as applying DESeq2 to KO-counts is perfectly valid; its underlying negative binomial model is metho…
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The massive difference has been reproducible across the 3 biological replicates and is in line with what we would expect in terms of the bi…
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LChart
5.1k
My initial concern is the ~15-fold difference (450 vs 7500) between called peaks in the two different cell line conditions. This suggests t…
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