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
Limit : this year
all time
today
this week
this month
this year
1,000 results • Page
4 of 20
Sort: Views
Rank
Views
Votes
Replies
0
votes
0
replies
2.4k
views
Filtering using TLOD score in MuTect2?
RNA-Seq
Somatic-Mutation
Variant-Calling
updated 7 weeks ago by
Ram
43k • written 6.2 years ago by
Sharon
▴ 610
1
vote
4
replies
2.4k
views
Batch effect control in GWAS data.
Batch-effect
omniexpress
GWAS
GSA
updated 29 days ago by
Ram
43k • written 4.9 years ago by
saksis.rihards
▴ 10
4
votes
5
replies
2.4k
views
Merge CNVnator output of multiple samples
CNV
WGS
updated 10 months ago by
Ram
43k • written 6.7 years ago by
zhang248
▴ 40
4
votes
7
replies
2.4k
views
Batch effects vs biological variables
Batch-effect
DESeq2
combat_seq
updated 5 weeks ago by
Ram
43k • written 3.7 years ago by
l.uva
▴ 20
2
votes
20
replies
2.4k
views
The number of SVs called by `vg call` is much smaller than the number of SVs in the VCF used to construct the graph
vg
8 months ago by
Maxine
▴ 40
1
vote
2
replies
2.4k
views
Error in Adding 1000Genomes Ancestral Allele info: Using VCF tools fill-aa
vcftools
samtools
faidx
tabix
1000Genomes
updated 12 months ago by
barslmn
★ 2.2k • written 6.6 years ago by
shrutishreyajha
▴ 10
1
vote
3
replies
2.4k
views
BBMap : NH:i:1 and XT:A:R
bbmap
updated 5 months ago by
ayaosama2111
▴ 10 • written 7.5 years ago by
Nicolas Rosewick
11k
1
vote
3
replies
2.4k
views
Use vcf files for dN/dS calculations
sequencing
updated 7 months ago by
rohitsatyam102
▴ 860 • written 6.4 years ago by
L. A. Liggett
▴ 120
2
votes
2
replies
2.4k
views
bcftools annotate -a
bcftools
VCF
updated 10 months ago by
Ram
43k • written 14 months ago by
anasjamshed
▴ 120
0
votes
0
replies
2.4k
views
Tool To Convert Affy Oncoscan Data Into Affy Snp6.0 Format
r
updated 11 months ago by
Ram
43k • written 10.6 years ago by
Jason
▴ 20
2
votes
5
replies
2.4k
views
GTF file for HIV strain pNL4-3
HIV
annotation
mapping
updated 11 weeks ago by
xiaoleiusc
▴ 140 • written 5.9 years ago by
caggtaagtat
★ 1.9k
14
votes
18
replies
2.4k
views
Clustering in single cell
seurat
single-cell
updated 7 months ago by
e.r.zakiev
▴ 210 • written 7 months ago by
Chris
▴ 280
1
vote
1
reply
2.3k
views
RStudio Cloud : Problem in Package Installing
RStudio
Bioconductor
updated 11 months ago by
Ram
43k • written 4.0 years ago by
Rishabh Jha
• 0
0
votes
0
replies
2.3k
views
Slimming or not slimming with Gene Ontology: which tool should be used?
gene-ontology
go-annotation
updated 10 months ago by
Ram
43k • written 7.8 years ago by
tlorin
▴ 360
1
vote
0
replies
2.3k
views
Inflated qq plot and genomic inflation est. lambda
gene
SNP
genome
updated 10 months ago by
Ram
43k • written 6.0 years ago by
khn
▴ 130
0
votes
1
reply
2.3k
views
Cochran-Armitage trend test
plink
updated 10 months ago by
Ram
43k • written 7.8 years ago by
toyan.j.p
▴ 30
1
vote
1
reply
2.3k
views
Tools for just generating a file including all shared variants in all VCF files
vcf
shared-variants
updated 11 months ago by
Ram
43k • written 7.8 years ago by
zengtony743
▴ 80
1
vote
1
reply
2.3k
views
NS, AC, AN and AF in VCF file
VCF
updated 8 months ago by
Mwangana
• 0 • written 22 months ago by
wangdp123
▴ 340
0
votes
11
replies
2.3k
views
i want to convert .ht2 files into FASTA file
GATK
HISAT2
FASTA
updated 11 months ago by
Ram
43k • written 5.0 years ago by
saumya.sharma1509
• 0
2
votes
5
replies
2.3k
views
Reciprocal blast commandline
Blast
updated 11 months ago by
Ram
43k • written 4.8 years ago by
baurumon
▴ 30
0
votes
2
replies
2.3k
views
ROSE Algorithm for Ranking Super Enhancers
ChIP-Seq
updated 12 weeks ago by
Ram
43k • written 3.9 years ago by
mropri
▴ 150
0
votes
4
replies
2.3k
views
HOMER load genomes not working
HOMER
rna
pombe
genome
updated 11 months ago by
Ram
43k • written 3.9 years ago by
c78483
• 0
0
votes
3
replies
2.2k
views
ANGeS - Ancestral Genome reconstruction
ancestral
genome
updated 10 weeks ago by
illodukarthickbabu
• 0 • written 2.7 years ago by
alslonik
▴ 310
0
votes
7
replies
2.2k
views
Command not found after pip install spliceai
software error
updated 7 months ago by
smisek
• 0 • written 3.5 years ago by
ian_chiquier
• 0
1
vote
2
replies
2.2k
views
Quantitative anlysis of alternative splicing events
RNA-Seq
updated 10 months ago by
Ram
43k • written 9.7 years ago by
Anil Kesarwani
▴ 90
4
votes
7
replies
2.2k
views
About normalization of the datasets from Harmonized TCGA data
protein
transcript
normalisation
updated 3 months ago by
Ram
43k • written 22 months ago by
qiz218591
▴ 10
0
votes
1
reply
2.2k
views
MACS2 result analysis
peak-calling
macs2
ChIP-Seq
updated 11 months ago by
Ram
43k • written 5.0 years ago by
chaudharyc61
▴ 90
0
votes
5
replies
2.2k
views
error during installationi of KisSplice
cpp
c
RNA-Seq
kissplice
SNP
updated 12 months ago by
Ram
43k • written 7.8 years ago by
yoyofangliu
• 0
0
votes
1
reply
2.2k
views
monocle how to identify branches
RNA-Seq
pseudotime
monocle
updated 10 months ago by
Ram
43k • written 5.6 years ago by
hsu
▴ 40
1
vote
4
replies
2.2k
views
Remove batch effect for prediction of RNA-seq data
RNA-Seq
batch-effect
Random-Forest
updated 29 days ago by
Ram
43k • written 4.7 years ago by
Vlad
▴ 10
0
votes
3
replies
2.2k
views
minimap's SAM file MAPQ value for the unique alignments
minimap
MAPQ
RNAseq
11 months ago by
Mo
▴ 40
0
votes
3
replies
2.2k
views
extraction of original gene iDs from reference annotation file
rna-seq
updated 8 months ago by
aishwarya
• 0 • written 5.9 years ago by
blooming.daisy333
▴ 110
0
votes
1
reply
2.2k
views
hmmsearch didn't work with nucleotide genome
genome
hmmsearch
HMMER
updated 10 months ago by
Ram
43k • written 6.2 years ago by
lbroetto
• 0
4
votes
2
replies
2.2k
views
Bfast Match Paired End Reads - Reports Half Total Number Of Reads
paired-end
alignment
next-gen
updated 10 months ago by
Ram
43k • written 11.3 years ago by
Kenneth Daily
▴ 50
2
votes
13
replies
2.2k
views
RepeatMasker error when trying to generate repeat sequence distribution pie chart (all code and errors provided)
repeatmasker
updated 7 months ago by
Ram
43k • written 9 months ago by
epianalysis
• 0
4
votes
6
replies
2.1k
views
Single nucleotide Polymorphism (SNP)
SNP
updated 10 months ago by
Ram
43k • written 9.1 years ago by
Harish Sanja
▴ 10
0
votes
5
replies
2.1k
views
Extra header column stopping EMMAX (C), but not seen in input files
emmax
genomics
Cpp
plink
GWAS
updated 10 months ago by
linchenshitiancai
• 0 • written 6.2 years ago by
michael.nagle
▴ 100
0
votes
2
replies
2.1k
views
Tool for manual annotation curation
annotation
updated 10 months ago by
Ram
43k • written 6.7 years ago by
Rox
★ 1.4k
4
votes
9
replies
2.1k
views
Legend and hap files for imputation with 38 build
reference
38build
impute
imputation
17 days ago by
anna
▴ 20
10
votes
10
replies
2.1k
views
PyWGCNA
WGCNA
11 months ago by
yoshifumimiya
▴ 50
0
votes
2
replies
2.1k
views
How map the gene position to the genomic position.
vcf
sequence
SNP
genome
updated 10 months ago by
Ram
43k • written 6.7 years ago by
misbahabas
▴ 70
0
votes
0
replies
2.1k
views
Mgrep Source Code
mgrep
updated 10 months ago by
Ram
43k • written 11.4 years ago by
Will
4.5k
0
votes
2
replies
2.1k
views
Giemsa stain annotation/nomenclature for UCSC cytoband tracks
ucsc
ggbio
gviz
hg19
updated 3 months ago by
Ram
43k • written 7.2 years ago by
maden.sean
▴ 20
0
votes
1
reply
2.1k
views
hisat2 error: Symbol not found ... libstdc++.6.dylib
hisat2
libstdc
RNA-Seq
dylib
updated 11 months ago by
Ram
43k • written 4.1 years ago by
axolootle
• 0
0
votes
5
replies
2.1k
views
Batch effect correction & normalization after training/test split for gene expression data
RNA-seq
batch-effect
normalization
updated 4 weeks ago by
Ram
43k • written 21 months ago by
mmitra
▴ 60
0
votes
2
replies
2.1k
views
CWL :File created on fly by one step of a workflow as input to another step
Common-Workflow-Language
CWL
updated 8 months ago by
Ram
43k • written 7.1 years ago by
akashmdr90
• 0
0
votes
0
replies
2.1k
views
betweenLaneNormalization and calcNormFactors in RUVs
Differential-Gene-Expression
RUVs
RNA-Seq
R
updated 5 weeks ago by
Ram
43k • written 6.9 years ago by
manish20072013
▴ 10
2
votes
2
replies
2.1k
views
Plotting Allele Frequencies
variant-analysis
updated 7 months ago by
Ram
43k • written 4.8 years ago by
kristina.mahan
▴ 170
1
vote
3
replies
2.1k
views
psmc bootstrapping help
bootstrap
psmc
updated 7 weeks ago by
xuby963
• 0 • written 3.2 years ago by
truebeliever24
▴ 50
0
votes
2
replies
2.0k
views
AttributeError: module 'collections' has no attribute 'Hashable'
Spades
updated 5 months ago by
jiyoung
▴ 20 • written 13 months ago by
Hayler Edu
▴ 40
1,000 results • Page
4 of 20
Recent Votes
A: Is there a software that can compare phylogenetic trees to each othe (face to fa
Comment: Differentially Expressed Genes between two conditions (scRNA, single GEO dataset
Differentially Expressed Genes between two conditions (scRNA, single GEO dataset with multiple samples and no cell annotations)
Differentially expressed genes between Seurat objects
A: Differentially expressed genes between Seurat objects
differential gene expression analysis comparing different conditions using scRNAseq
Answer: Using Seurat function `FindMarkers` to find differentially expressed genes betwe
Recent Locations •
All
United States,
just now
UK,
1 minute ago
United States,
2 minutes ago
France,
3 minutes ago
Singapore,
3 minutes ago
Bologna,
3 minutes ago
France,
5 minutes ago
Recent Awards •
All
Popular Question
to
alanh
▴ 170
Scholar
to
Peter
6.0k
Popular Question
to
ashkan
▴ 160
Supporter
to
Umer
▴ 50
Scholar
to
zx8754
11k
Teacher
to
Rob
6.6k
Popular Question
to
Nyksubuz
▴ 20
Recent Replies
Comment: how to treat the replicates while performing WGCNA
by
andres.firrincieli
3.6k
> 1) I do not want to merge the MEs rather I asked about replicates, as > some replicates of same sample are showing different behavior for…
Comment: How to systematically check if a bam file is truncated
by
alanh
▴ 170
For more details about what `samtools quickcheck` actually checks for, add a few `-v`'s to the command line. $ samtools quickcheck -…
Comment: How to handle duplicated genes in TCGA data?
by
Zhenyu Zhang
★ 1.2k
Second what is said above, ensembl_id is the unique identifier. As a good bioinformatics habit, always use unique identifier for your anal…
Comment: ComplexHeatmap - How to change fontsize of rowAnnotation
by
hannes.bongartz
• 0
It doesn't work. The annotation labels are still in a default fontsize. I cant find a way to set the fontsize.
Comment: ComplexHeatmap - How to change fontsize of rowAnnotation
by
Ram
43k
Yes. The solution to most things with ComplexHeatmap is to play around with parameters.
Comment: Reconstruction of locus, order contigs
by
BATMAN
• 0
I do not want to re-annotate the genome. I ask if there is a way to extract the region aligned with the mauve, in .gbk format.
Comment: ComplexHeatmap - How to change fontsize of rowAnnotation
by
hannes.bongartz
• 0
Thank you. What exactly do you mean? Changing `ha = rowAnnotation(text = anno_mark(at = mark_at, labels = gene_names_interesting_in_cluster…
Comment: ComplexHeatmap - How to change fontsize of rowAnnotation
by
Ram
43k
Try tweaking the `gp` of the rowAnnotation instead of tweaking the `annotation_name_gp` - that might do the trick.
Comment: Help! Reconstruction of locus, order contigs
by
dthorbur
★ 2.0k
I don't understand your comment. What do you mean? > my idea is not to have to write it down If you have an alignment already, why can't…
Comment: Details on salmon index
by
Rob
6.6k
Hi Lorenzo, That is correct. The initial version of salmon used the RapMap index explained above. When we published the selective align…
Comment: Help! Reconstruction of locus, order contigs
by
BATMAN
• 0
Thanks for your reply, my idea is not to have to write it down. What I have is an alignment of the .gbk from the progressiveMauve. It would…
Comment: Faster Needleman-Wunsch rapid global alignment of two sequences?
by
Gabriel R.
★ 2.9k
I did some digging aroumd, no static binary. Plus it seems you need to roll your own program.
Comment: Faster Needleman-Wunsch rapid global alignment of two sequences?
by
Gabriel R.
★ 2.9k
We tested it, however, it does not seem to produce a fast a file of the results or anything that we can easily parse. It produces a CIGAR a…
Comment: zero TPM for many gene including housekeeping when using kallisto
by
ashkan
▴ 160
@atpoint yes but for example for the kallisto results I have expression for 2080 genes (transcripts) and the rest are 0 but in my STAR resu…
Comment: In one PCA plot, can I calculate the percentage of different factors that contri
by
marco.barr
▴ 130
great team work! why can't you access and do the calculation for the other components too? can't you extract the information from the other…
Traffic: 2644 users visited in the last hour
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