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1,000 results • Page
2 of 20
Sort: Rank
Rank
Views
Votes
Replies
0
votes
1
reply
163
views
f-index in treemix
treemix
introgression
f-index
3 days ago by
kk.mahsa
▴ 140
0
votes
2
replies
312
views
Network analysis for two Factors
score
protein
network
chip-seq
analysis
3 days ago by
Ankit
▴ 390
0
votes
5
replies
391
views
ceres score in crispr screen
ceres
crispr
ngs
2 days ago by
edus_bioinfo
▴ 20
0
votes
0
replies
241
views
Issues Using DMRcate and rmSNPandCH
DMRcate
R
1 day ago by
Indira
• 0
0
votes
0
replies
148
views
Statistical test on two phylogenetically remote groups
phylogeny
ANOVA
3 days ago by
liorglic
★ 1.1k
0
votes
0
replies
179
views
Sequence Homology locator
Sequence
Homology
Genome
finder
4 days ago by
himalayan_yeti
• 0
2
votes
4
replies
335
views
How to find the most frequent alternative-splicing event from DEXSEQ data?
DESEQ
RNA-SEQ
DEXSEQ
2 days ago by
STARDUST
• 0
1
vote
4
replies
375
views
SNP calling
SNP
GATK
updated 6 hours ago by
dthorbur
▴ 270 • written 4 days ago by
abozorgmehr1985
▴ 10
0
votes
0
replies
181
views
gistic- overlapp
CNV
GISTIC
TCGA
4 days ago by
Hanie
• 0
0
votes
0
replies
194
views
Protocol to detect chromosomal ploidy from WGS VCF?
wgs
ploidy
4 days ago by
optimistsso4co3
▴ 100
0
votes
0
replies
181
views
SpliceAi same variant , different score
SpliceAi
updated 4 days ago by
Pierre Lindenbaum
152k • written 4 days ago by
vvasta
• 0
0
votes
0
replies
185
views
GSEA multiple group analysis
gsea
single-cell
4 days ago by
piotto
▴ 10
0
votes
2
replies
272
views
cellranger-arc mkfastq Error: bcl2fastq was killed with signal -11
bcl2fastq
cellranger-arc
mkfastq
cellranger
4 days ago by
Yingying
• 0
0
votes
0
replies
196
views
Unrooted consensus tree [Bio.Phylo]
consensus
phylo
biopython
5 days ago by
Jimpix
▴ 10
0
votes
6
replies
445
views
PLINK2 selecting variants based on INFO score
plink2
2 days ago by
m.c.roozen
• 0
0
votes
0
replies
158
views
What is the difference between gseapy.prerank and gseapy.gsea?
gseapy
gsea
5 days ago by
bioinfo
▴ 20
3
votes
6
replies
360
views
Which file and data structure is used to create volcano plot from scRNA-Seq experiment?
plot
Volcano
4 days ago by
Chris
▴ 60
1
vote
1
reply
187
views
bwa mem duration?
performance
mapping
bwa
updated 5 days ago by
ATpoint
69k • written 5 days ago by
lacb
▴ 30
2
votes
4
replies
307
views
Gene ontology with locus tags
ontology
locus
gene
tags
updated 1 day ago by
dthorbur
▴ 270 • written 5 days ago by
sea.joson
▴ 10
0
votes
7
replies
369
views
Clustering and dynamic tree cutting
dynamicTreeCut
Clustering
data
RNAseq
cutreeDynamic
updated 1 day ago by
andres.firrincieli
3.1k • written 5 days ago by
harish
• 0
0
votes
6
replies
336
views
STAR is running but .sam file size does not increase after hours mapping
STAR
RNA-seq
mapping
SAM
updated 5 days ago by
GenoMax
125k • written 5 days ago by
luzglongoria
▴ 40
0
votes
5
replies
455
views
HTSeq error processing GFF file
HTSeq
GFF
GTF
updated 4 days ago by
barslmn
★ 1.3k • written 5 days ago by
ibq.enriquepola
• 0
0
votes
0
replies
157
views
which tool to use for Transposon structure finding CENSOR or repeat masker ??
transposon
DNA
repeat
CENSOR
masker
5 days ago by
manaswiniparija3
▴ 10
0
votes
0
replies
157
views
scATAC merging of files
Signac
scATAC-seq
5 days ago by
bioinformatics.girl
• 0
0
votes
0
replies
168
views
what does ALT ID DUP refer to when ALT ID for copy number are already specified
ALT
ID
CNV
VCF
5 days ago by
anubratadas
▴ 20
0
votes
0
replies
189
views
How to use gseapy after scanpy?
gsea
single
cell
enrichR
gseapy
5 days ago by
bioinfo
▴ 20
0
votes
0
replies
165
views
VNTR genotyping
NGS
VNTR
genotyping
5 days ago by
Genotepes
▴ 950
0
votes
0
replies
131
views
Which AF column do I use from TCGA data in maftools
vcf2maf
sequencing
genome
WES
maf
5 days ago by
CH1374
▴ 10
0
votes
0
replies
130
views
Chloroplast genome phylogenetic analysis
Inverted
region
Chloroplast
genome
Phylogenetic
analysis
SSC
5 days ago by
a.bibek52
• 0
0
votes
0
replies
131
views
mVISTA annotation
alignment
Annotation
S-LAGAN
mVISTA
5 days ago by
a.bibek52
• 0
4
votes
2
replies
229
views
Analyzing bulk RNA-seq
RNAseq
updated 5 days ago by
swbarnes2
13k • written 5 days ago by
Zaid
• 0
1
vote
13
replies
463
views
RNAseq for DE purpose
RNAseq
updated 5 days ago by
swbarnes2
13k • written 5 days ago by
m.habib
• 0
0
votes
0
replies
117
views
Identifying off-target mutation frequency in Bacterial genomes
dCas9-deaminase
off-target
SNPS
WGS
dCas9
5 days ago by
pd378
• 0
0
votes
0
replies
93
views
SVA correction reduces ability to detect genes as differential expressed?
effects
RNAseq
expression
batch
SVA
gene
5 days ago by
MB
▴ 50
0
votes
7
replies
405
views
CoveragePlot in Signac from MACS2 Object
Signac
scATAC-seq
updated 5 days ago by
seidel
10k • written 6 days ago by
bioinformatics.girl
• 0
0
votes
1
reply
166
views
Remove duplicates in multifasta, where entries are paired
bash
python
updated 5 days ago by
dthorbur
▴ 270 • written 6 days ago by
SaltedPork
▴ 170
3
votes
3
replies
238
views
snakemake Unexpected keyword bam in rule definition
snakemake
updated 2 days ago by
Wayne
★ 1.6k • written 6 days ago by
Aidand
• 0
0
votes
0
replies
88
views
Normalize Together Total RNA-SEQ vs Ampliseq protocols reads
RNA-seq
deseq2
ampliseq
ion-torrent
R
6 days ago by
Fernando
• 0
0
votes
0
replies
92
views
Combining mRNA and total RNA studies
RNA-Seq
bulk
updated 5 days ago by
Ram
38k • written 6 days ago by
aksh
• 0
0
votes
0
replies
84
views
Twist Exome Sequencing Data: Palindromic Tandem Insertion-Deletion
NGS
Artefact
Twist
Sequencing
Exome
6 days ago by
TraPS-VarI
• 0
0
votes
0
replies
143
views
Bootstrap in PhyML
phyml
bootstrap
6 days ago by
Jimpix
▴ 10
0
votes
0
replies
120
views
Cibersort phenotpe file to create signature matrix
deconvolution
cibersort
file
phenotype
6 days ago by
ce810b57
• 0
0
votes
0
replies
133
views
Enrichment map in python/ Pathway network by using python
interaction.
enrichment
network
pathway
analysis
6 days ago by
sonsunjirachote
• 0
0
votes
1
reply
195
views
How to analysis genomes with orthologs?
ortholog
genome
annotation
updated 6 days ago by
GenoMax
125k • written 6 days ago by
沛煒
• 0
0
votes
0
replies
124
views
Does the falcon input CLR reads need corrected by Canu?
Genome
assemble
6 days ago by
leeunfeng
• 0
0
votes
0
replies
108
views
CUT&RUN H3K27me3 normalization with spike-in
deepTools
6 days ago by
mohansri1
• 0
0
votes
0
replies
123
views
How to identify nodes in a network with a higher degree and higher edge variance?
network
variance
WGCNA
igraph
updated 6 days ago by
ATpoint
69k • written 6 days ago by
adR
▴ 100
0
votes
2
replies
211
views
Can you apply Base Score Recalibration in parallel?
wgs
updated 6 days ago by
LChart
1.8k • written 6 days ago by
optimistsso4co3
▴ 100
0
votes
3
replies
291
views
Change accession number to chromosome number in reference genome
fasta
chromosome
updated 5 days ago by
Ram
38k • written 6 days ago by
Tsigabu
• 0
0
votes
0
replies
98
views
Median depth across samples from multi-sample VCF
DP
bcftools
6 days ago by
alex.blakes
• 0
1,000 results • Page
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Recent Votes
Answer: how I can install lumi, plier, simpleaffy, oligo classes, LMGene and siggens pac
Comment: Bacterial metatranscriptomics with DESEQ2?
C: How to extend contigs from single-end reads?
C: How to extend contigs from single-end reads?
Answer: Seurat or Bioconductor for single cell RNA seq
Seurat or Bioconductor for single cell RNA seq
Answer: Seurat or Bioconductor for single cell RNA seq
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mathavanbioinfo
▴ 70
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cgds
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Recent Replies
Comment: how to get an average ROC curve after 10-fold cross validation in r
by
Lisa
• 0
thanks for your help
Comment: docker build Command Works Yet It Does Not Create A Docker Container
by
Indira
• 0
So - I am trying to get around proxy issues but essentially installing required packages in a docker/sif then trying to use that to run an …
Comment: Sort gff3 on chromosome, position and then featuretype (gene, mRNA, exon, CDS)
by
Ram
38k
Do not add answers unless you're **answering** the top level question. Use `Add Comment` or `Add Reply` instead as appropriate. I've moved …
Comment: Sort gff3 on chromosome, position and then featuretype (gene, mRNA, exon, CDS)
by
BioinfoBee
• 0
@juke34 I tried the agat_sp_gxf_to_gff3.pl to sort the gff3 by their chromosome order but doesn't seems to work. Any suggestions?.
Comment: CNV Prediction Tools
by
Quentin M
▴ 60
Give a try to [CODEX2][1] [1]: https://genomebiology.biomedcentral.com/articles/10.1186/s13059-018-1578-y
Comment: Problem with tximport and plasmodium falciparum
by
bioinfo
▴ 20
Thank you. It does not seem to be that. I changed my script a bit. Now it looks like shown below: mart <- biomaRt::useMart("protists_…
Comment: Copy Number Variants, where to start?
by
paolo
▴ 60
I have found autoCNV, inCNV, and ClassifyCNV. The second one is for exomic CNVs only, and the third one does not run on Windows, but it mig…
Comment: BLAST reference genome indexing
by
GenoMax
125k
That is correct.
Comment: BLAST reference genome indexing
by
bhumm
▴ 20
Thanks for the explanation and links. So when calling the database in the for use, I call the prefix of all the 'subfiles' which invokes th…
Comment: Averaging across multiple proteomic experiments
by
bhumm
▴ 20
It is two biological replicates. I reasoned it as increasing N=2. For both biological replicates, it is ~13 controls vs ~13 disease conditi…
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tximport will calculate the weighted effective transcript length, but it doesn't use that in its calculation of gene level expression. Both…
Comment: FATAL: While performing build: build image size <= 0 - Issues With Singularity
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• 0
I was building a docker image I created on my computer on an HPC. It seems that due to some network issues I kept getting this FATAL messag…
Answer: Seurat or Bioconductor for single cell RNA seq
by
Lindsey
▴ 10
Seurat is an R package, so if you're used to work with other Bioconductor packages, you should be fine! Also the tutorials and manuals from…
Answer: Seurat or Bioconductor for single cell RNA seq
by
Basti
★ 1.3k
Bioconductor is a package repository so your question is not accurate. Maybe you hesitate between Seurat and other packages dedicated to sc…
Answer: fastq-dump split-spot and skip-technical
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Larissa Graciano
• 0
The link to the blog post isn't working, I believe this is the updated one: https://edwards.flinders.edu.au/fastq-dump/
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