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1,000 results • Page
2 of 20
Sort: Rank
Rank
Views
Votes
Replies
0
votes
3
replies
148
views
CNV Prediction Tools
NGS
Variant
CNV
Calling
updated 29 minutes ago by
Quentin M
▴ 60 • written 1 day ago by
adarsh_pp
▴ 10
0
votes
3
replies
190
views
How to unzip a file with .bgz extention
.bgz
unzip
updated 1 day ago by
GenoMax
125k • written 1 day ago by
taniamahmood38
▴ 20
0
votes
1
reply
248
views
Variant calling on synthesized DNA
Nanopore
Calling
MinION
Variant
sequencing
SNP
Python
updated 1 day ago by
colindaven
4.4k • written 23 days ago by
stan.aanhane
▴ 30
0
votes
0
replies
108
views
FWS calculation using plink data
vcf
Fws
Plink
1 day ago by
anithanagaraj93
• 0
0
votes
0
replies
112
views
qPCR missing data
Bioconductor
Analysis
Expression
qPCR
1 day ago by
Prerna
• 0
0
votes
0
replies
92
views
imputing haplotypes from variants in a VCF file - vcfIndexFile
practical
graph
haplotype
vcf
imputation
PHG
1 day ago by
matt.shenton
▴ 40
0
votes
0
replies
99
views
Pathway Analysis for Cancer Spatial Transcriptomics Characterization
Spatial
Pathway
Oncology
Transcriptomics
Enrichment
updated 1 day ago by
GenoMax
125k • written 1 day ago by
Flemming
• 0
1
vote
1
reply
137
views
difference between chip-seq and association study
association
chip-seq
TWAS
updated 1 day ago by
seidel
10k • written 1 day ago by
rheab1230
▴ 120
2
votes
4
replies
301
views
Issues With Using Singularity In Order To Run Software "quested access to the resource is denied"
Singularity
updated 8 hours ago by
ATpoint
68k • written 1 day ago by
Indira
• 0
0
votes
6
replies
1.3k
views
Gene trans map for Trinotate input using non-Trinity assembled transcriptome?
RNAseq
transcriptomics
Trinotate
assembly
annotation
updated 1 day ago by
liyong
▴ 40 • written 12 months ago by
Corey
• 0
3
votes
5
replies
400
views
How to download all Gene Ontology (GO) IDs with their associated vocabulary?
download
GO
gene_ontology
1 day ago by
Jimmy
• 0
0
votes
1
reply
142
views
gff2bed fails with "Non-numeric start coordinate. "
bedops
updated 1 day ago by
Jimmy
• 0 • written 1 day ago by
scottbrainard
▴ 50
0
votes
0
replies
102
views
Using bigWigCompare to correct for input signal
chip
input
peaks
bigwig
deeptools
22 hours ago by
Maycon
• 0
4
votes
2
replies
154
views
Creating reference genome that includes HIV genome
alignment
1 day ago by
FrankStarling
▴ 30
0
votes
0
replies
98
views
Trying to understand the difference between between these two HGVS
hgvs
1 day ago by
curious
▴ 720
0
votes
0
replies
101
views
RagTag patch error--"tuple index out of range"
correction
ragtag
scaffolding
1 day ago by
schmiggle
• 0
1
vote
0
replies
141
views
Herald:
The Biostar Herald for Monday, February 06, 2023
herald
1 day ago by
Biostar
1.5k
1
vote
2
replies
197
views
How to compare different illumina indices with each other to see how similar or different they are
alignment
sequencing
rna-seq
updated 1 day ago by
GenoMax
125k • written 1 day ago by
Apex92
▴ 260
0
votes
0
replies
104
views
network alignment and network regression
network
1 day ago by
Bogdan
★ 1.3k
0
votes
0
replies
97
views
Can't convert paired end BAM to bed using bedtools
BAM
BEDPE
updated 1 day ago by
GenoMax
125k • written 1 day ago by
oksana03fel
• 0
0
votes
5
replies
370
views
how to get an average ROC curve after 10-fold cross validation in r
r
cross-validation
curve
roc
1 day ago by
Lisa
• 0
0
votes
0
replies
100
views
Why does bcftools call from different max-depth (-d) value in mpileup give inconstant GT values?
mpileup
pileup
vcf
calling
bcftools
variant
1 day ago by
magnolia
▴ 20
0
votes
1
reply
200
views
MetaboAnalyst: Interpreting Enrichment Analysis Results
enrichment
metabolomics
1 day ago by
eva_u
▴ 10
1
vote
3
replies
146
views
Mapping with bbmap.sh
bbtools
SAM
bbmap
updated 1 day ago by
GenoMax
125k • written 2 days ago by
Hayler Edu
▴ 30
0
votes
0
replies
76
views
News:
Course - Version Control for Researchers
VersionControl
GIT
Github
1 day ago by
carlopecoraro2
★ 2.2k
0
votes
4
replies
199
views
geom_errorbar not dodging or producing horizontal line
ggplot2
geom_errorbar
updated 1 day ago by
FrankStarling
▴ 30 • written 2 days ago by
bsp017
▴ 40
3
votes
5
replies
205
views
Size of two scRNA-Seq conditions
scRNA-Seq
1 day ago by
Chris
▴ 60
6
votes
4
replies
204
views
What type of database does gnomAD use?
gnomAD
updated 2 days ago by
Jeremy Leipzig
21k • written 2 days ago by
Mariana Ribeiro
▴ 20
1
vote
3
replies
202
views
Dealing with missing (NA) values in my 450K methylation array dataset
minfi
PCA
expression
Methylation
R
updated 1 day ago by
Basti
★ 1.3k • written 2 days ago by
Edward E-B
• 0
0
votes
1
reply
96
views
snp Caenorhabditis elegans
snp
Caenorhabditis-elegans
updated 2 days ago by
Ram
38k • written 2 days ago by
haiminabox
• 0
0
votes
2
replies
308
views
want the code for cuffdiff , NIOSeq , bayseq to perform DEGs.
DEGs
1 day ago by
rupali
• 0
0
votes
0
replies
77
views
Mapping IDs to systematic names (GOSim, setevidencelevel() )
GOSim
1 day ago by
eliska.ochodkova
• 0
0
votes
1
reply
112
views
Novogene somatic results with GATK mutect2
Mutect2
Novogene
GATK
somatic
VCF
updated 2 days ago by
GenoMax
125k • written 2 days ago by
chrisgr
▴ 20
2
votes
5
replies
210
views
fastqc: Per base sequence content
illumina
metagenomic
fastqc
1 day ago by
khoojj
• 0
0
votes
0
replies
99
views
A question about Bioinformatik analysis and experimental design / comparing 2 experiments
DEseq2
Batch-effect
updated 2 days ago by
Ram
38k • written 2 days ago by
Frederik
• 0
4
votes
3
replies
145
views
Is it possible to do bedtools multicov across the entire genome?
bedtools
depth
hg38
2 days ago by
amy__
▴ 50
0
votes
2
replies
185
views
Index with unmasked or masked in HISAT2
masked
HISAT2
toplevel
unmasked
1 day ago by
ibq.enriquepola
• 0
3
votes
3
replies
229
views
How to enable multiple cores/threads for Bowtie2 or BWA using Macbook M2 chip?
mac
bowtie2
bwa
m2
updated 1 day ago by
GenoMax
125k • written 2 days ago by
weixiaokuan
▴ 130
1
vote
2
replies
280
views
Obtaining every"Protein ID" from a genome in OMA
OMA
orthologs
updated 2 days ago by
Adrian Altenhoff
★ 1.0k • written 4 days ago by
christyh
• 0
0
votes
1
reply
134
views
Error, (in LoadSpliceMap) string to parse is too long
oma
LoadSpliceMap
omastandalone
orthology
updated 2 days ago by
Adrian Altenhoff
★ 1.0k • written 2 days ago by
ziqing
• 0
2
votes
1
reply
227
views
How to use CAFE from Orthofinder Results
expansion
orthofinder
cafe
gene
updated 2 days ago by
dariober
14k • written 4 days ago by
ahmadjoyyia
▴ 10
0
votes
0
replies
106
views
Input data for LIMMA: unnormalised or vsn or other?
lima
normalisation
vns
2 days ago by
Sebastian Hesse
▴ 320
0
votes
0
replies
93
views
question of exonerate output
protein
gff
exonerate
annotation
2 days ago by
TN
• 0
1
vote
1
reply
216
views
Tripal installation question
BioDb
Drush
Tripal
Drupal
2 days ago by
alslonik
▴ 260
2
votes
2
replies
275
views
Can Singularity be installed on a single-node server or does it have to be HPC?
Singularity
updated 2 days ago by
tothepoint
▴ 720 • written 3 days ago by
SalmaElShafie
• 0
0
votes
0
replies
111
views
Mis-paired primers
amplicon
primers
Mis-paired
2 days ago by
Sara
▴ 10
0
votes
0
replies
107
views
show amplicon like exon in UCSC/IGV
amplicon
2 days ago by
Sara
▴ 10
0
votes
2
replies
185
views
scATAC-seq workflow
Signac
scATAC-seq
2 days ago by
bioinformatics.girl
• 0
0
votes
0
replies
133
views
Set Y limits for ggplot with sec.axis
rstudio
ggplot
2 days ago by
JirMan
• 0
0
votes
1
reply
140
views
Filter InterProScan output for a specific function
interproscan
annotation
updated 2 days ago by
jv
▴ 800 • written 3 days ago by
Purger
• 0
1,000 results • Page
2 of 20
Recent Votes
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
Answer: Seurat or Bioconductor for single cell RNA seq
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Recent Replies
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…
Comment: How to summarize the expression of a gene when having expression data from diffe
by
i.sudbery
16k
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
by
Indira
• 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
by
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/
Comment: Find corresponding branch from gene tree in species tree
by
andres.firrincieli
3.1k
check Notung: [link][1] [1]: http://www.cs.cmu.edu/~durand/Notung/
Comment: Help please! Miseq SOP with galaxy toolsuite
by
Melissa
• 0
I have posted in their forum but I have not found a solution yet. I was posting here for an alternative help source. I am running mother…
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