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1,000 results • Page
1 of 20
Sort: Rank
Rank
Views
Votes
Replies
0
votes
0
replies
38
views
CpGtools no output
methylation
cpgtools
2 hours ago by
Anna
• 0
0
votes
0
replies
45
views
GTF file from Stringtie to R Studio for either Ballgown or DESeq2
Stringtie
Cufflinks
Ballgown
DESeq2
2 hours ago by
Nina
• 0
0
votes
0
replies
48
views
Removing Illumina microarray probes with no expression HumanHT-12v4
Low
expression
microarray
HumanHT-12v4
Illumina
4 hours ago by
Bioinformatician
• 0
0
votes
0
replies
71
views
Using samtools with GCS (google cloud storage) on docker a docker container seems to give "Protocol Not Supported" error
samtools
gcs
6 hours ago by
abhishekghadge
• 0
0
votes
3
replies
179
views
how to find genes that are significantly expressed in brain cortex samples
rna-seq
gene-expression
updated 30 minutes ago by
Ram
43k • written 7 hours ago by
rheab1230
▴ 140
1
vote
4
replies
317
views
what's the genomic location and name of gene responsible for orange and black patches in calico cats
genomes
updated 6 hours ago by
Matthias Zepper
4.5k • written 8 hours ago by
Ann
★ 2.4k
0
votes
0
replies
67
views
agilent microarray gpl data does not have gene symbol column
microarray
agilent
gpl
updated 8 hours ago by
Ram
43k • written 9 hours ago by
mja
• 0
0
votes
0
replies
76
views
scRNA Cluster frequency
CV
PCA
scRNA
Cluster-Frequency
9 hours ago by
Nitin
• 0
0
votes
0
replies
79
views
absolute path for symbolic links in Snakefile
Snakemake
updated 9 hours ago by
Ram
43k • written 10 hours ago by
yifangt86
▴ 60
0
votes
0
replies
72
views
Chemical structure validation
structure
cap
validation
metabolite
10 hours ago by
Rodolfo Adrián
• 0
0
votes
1
reply
142
views
Downloading the raw microarray data from GEO
.gpr
microarray
.CEL
updated 10 hours ago by
GenoMax
141k • written 10 hours ago by
bioyas
▴ 10
0
votes
0
replies
89
views
Copy number variation plot
Copy-number-variation
genomics
updated 11 hours ago by
Ram
43k • written 11 hours ago by
Emmi
• 0
0
votes
0
replies
79
views
SNP calling with ANGSD and ngsLD. How many SNPs?
lcwgs
ngsTools
ANGSD
genomics
12 hours ago by
DanielEB_fisk
▴ 20
0
votes
1
reply
165
views
Could you please assist in identifying this cluster?
single-cell
updated 11 hours ago by
Ram
43k • written 13 hours ago by
Kazo
• 0
0
votes
0
replies
95
views
Conversion to tree format
PLINK
bed
Figtree
SplitsTree
updated 11 hours ago by
Ram
43k • written 15 hours ago by
Dinmukhamed
• 0
0
votes
0
replies
97
views
miRDeep2: How to get the read counts
mirdeep2
17 hours ago by
Atul K.
• 0
0
votes
0
replies
106
views
Lncipedia GTF file error
Proteomics
updated 11 hours ago by
Ram
43k • written 20 hours ago by
atharvakarkare14
▴ 10
3
votes
2
replies
274
views
Free/open source 23andme-like analysis
SNPs
genomics
NGS
VCF
13 hours ago by
joe
▴ 510
0
votes
2
replies
417
views
How to get the reference panel for UKBB
UKBB
GWAS
clump
1 day ago by
航太郎
• 0
0
votes
0
replies
121
views
create genewise sync file in popoolation
popoolation
updated 1 day ago by
GenoMax
141k • written 1 day ago by
N.Y.Wiyana-Hewage
• 0
0
votes
2
replies
282
views
python file for coding potential calculator
cpc2.py
23 hours ago by
Ashok
• 0
0
votes
2
replies
275
views
error in coding potential calculator CPC2
cpc
CPC2
coding-potential
23 hours ago by
Ashok
• 0
0
votes
2
replies
301
views
miRNAs quantification using mirdeep2 tool
differential-expression
mirdeep2
miRNA
21 hours ago by
Ashok
• 0
0
votes
0
replies
127
views
Variant Generation Using Longshot
long-reads
variant-calling
ONT
minion
longshot
updated 1 day ago by
Ram
43k • written 1 day ago by
samuelkalandarov2002
• 0
0
votes
2
replies
312
views
QC exclusion of A/T or G/C alleles to avoid strand issues
quality-control
SNV
QC
SNP
11 hours ago by
_quantum_girl_
▴ 10
0
votes
0
replies
133
views
traying to make a maf from an already annotated vcf
vcf2maf
VEP
maftools
updated 1 day ago by
Ram
43k • written 1 day ago by
Javier
• 0
0
votes
0
replies
125
views
Pruning with plink finds a majority of SNPs in very high LD
LD
SNP
plink
pruning
1 day ago by
enferdeflame
• 0
0
votes
0
replies
138
views
Difference when using difference number of pathways score to compare between 3 groups
GSVA
Limma
1 day ago by
Chris
▴ 260
0
votes
1
reply
393
views
How to add rowLinks, rowTree in SummarizedExperiment manually.
phylogenetic-tree
microbiome
updated 1 day ago by
Ram
43k • written 19 months ago by
Muhammad
• 0
0
votes
0
replies
136
views
How can I obtain the tissue or sample name alongside the Tau score in tspex?
tau-score
tspex
updated 1 day ago by
Ram
43k • written 1 day ago by
bioinfo223
▴ 10
0
votes
0
replies
146
views
How to root an unrooted tree with a known root tree?
phylogenetics
rooting
R
1 day ago by
P.
• 0
0
votes
0
replies
142
views
Issues with SnpEff Assuming Circular Chromosomes in Eukaryotic Genome Analysis
snpEff
1 day ago by
ekirsch
• 0
1
vote
1
reply
320
views
Load a full GFF3 into annotation track using arrow (Apollo)
arrow
python-apollo
Apollo
10 hours ago by
renan.igor
• 0
0
votes
0
replies
143
views
filter the most significant ligand and receptors in netVisual_bubble in cell chat
cellchat
2 days ago by
synat.keam
▴ 100
0
votes
1
reply
235
views
assembly using CCS, CLR, CCS_CLR sequences together?
assembly
updated 2 days ago by
GenoMax
141k • written 2 days ago by
ycts
• 0
0
votes
4
replies
512
views
Per base sequence content failed miserably
fastqc
sequence
trimmomatic
NGS
assembly
21 hours ago by
Kai Xin
• 0
1
vote
1
reply
205
views
Retrieve a % coverage for each transcript
RNA-seq
updated 2 days ago by
Ram
43k • written 2 days ago by
jammydodger123456
▴ 40
0
votes
2
replies
327
views
How can I solve this error?
metal
2 days ago by
22211020193
• 0
0
votes
0
replies
147
views
Struggling to lift genome builds
PLINK
liftover
GWAS
updated 2 days ago by
GenoMax
141k • written 2 days ago by
srimmer
• 0
1
vote
2
replies
240
views
Can I readmap short reads to rDNA references?
rDNA
assembly
updated 2 days ago by
Ram
43k • written 2 days ago by
aniigodwinn
• 0
0
votes
0
replies
294
views
Looking for an explanation as to what the Peak Score is from HOMER, not finding any answers on Biostars yet
Homer
ATAC-seq
2 days ago by
Ronin
• 0
2
votes
7
replies
730
views
Removing duplicates
duplicates
ONT
minimap2
updated 1 day ago by
joe
▴ 510 • written 2 days ago by
quentinperriere
• 0
0
votes
1
reply
170
views
Annotating a dataset with gnomAD v4 using Hail
Python
Sequencing
Hail
Exome
Annotation
updated 2 days ago by
DKA
▴ 40 • written 2 days ago by
james.melhorn
• 0
0
votes
1
reply
160
views
Freyja plot error
Freyja
updated 2 days ago by
Ram
43k • written 2 days ago by
Adyasha
• 0
0
votes
0
replies
132
views
BIOM format can contain tabular data ?
BIOM
phyloseq
biomformat
R
2 days ago by
chemokine-1
▴ 10
0
votes
4
replies
440
views
How to reduce the variation of CIBERSORTx results?
CIBERSORTx
deconcolution
1 day ago by
feather-W
• 0
0
votes
2
replies
184
views
Bedmethyl file format
bedmethyl
methylation
updated 2 days ago by
GenoMax
141k • written 2 days ago by
njornet
▴ 20
0
votes
0
replies
149
views
sequence table for DADA2 chimera filtering
OTU
sequencetable
DADA2
2 days ago by
Ali
• 0
2
votes
4
replies
280
views
SnpEff annotates coding duplication as intronic?
snpeff
2 days ago by
kirill.zaslavsky
• 0
0
votes
2
replies
217
views
Calculating percentage of cells proliferating in single cell rna seq data
statistics
scRNA-seq
proliferation
2 days ago by
mropri
▴ 150
1,000 results • Page
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bcftools multiple commands
bcftools pipe generated file from first command with second
C: How to setup a Summarized Experiment
A: How to download genome assemblies from NCBI with a list of GCA identifiers?
what's the genomic location and name of gene responsible for orange and black patches in calico cats
Comment: featureCounts --primary tag counting uniquely mapped reads and excludes multi-ma
Answer: Duplicate marking, read names, and the SRA
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Recent Replies
Comment: how to find genes that are significantly expressed in brain cortex samples
by
Ram
43k
Can you explain the normalization or give me a link that describes it, please? Comparison across samples will always be caveated as RNA-seq…
Comment: Installing/switching between versions of R/Rstudio/Bioconductor on personal mach
by
Ram
43k
Sorry, I see how harsh I come across. It's not good practice to use multiple versions of R in the same project. I can understand legacy pro…
Answer: MEGA Analysis Issue on High-Performance Computer
by
Mensur Dlakic
★ 27k
> I have ensured that I am using the latest version of MEGA and that other applications are not consuming excessive resources during the an…
Comment: Installing/switching between versions of R/Rstudio/Bioconductor on personal mach
by
BioinfGuru
★ 1.7k
Some of us are still learning and fall foul to knowledge limitation fairly regularly. Luckily we have people to put us in our place.
Answer: Running blastp with BLAST+ 2.15.0 against custom database; need to identify hits
by
GenoMax
141k
> I know that I should be able to collect protein sequences from the blastp results into a file, but I do not know how to do this. You c…
Comment: how to find genes that are significantly expressed in brain cortex samples
by
rheab1230
▴ 140
I got the normalized gene count from gtex portal. they use inverse quantile normalization
Comment: what's the genomic location and name of gene responsible for orange and black pa
by
Matthias Zepper
4.5k
It is not entirely off, but evidently also not correct. Melanin biosynthesis is a multistep process, that indeed prominently involves the…
Comment: Installing/switching between versions of R/Rstudio/Bioconductor on personal mach
by
Ram
43k
> so a single Rscript could utilise multiple environments and versions How is that sane, let alone "better"? Also, why use `snap` for curl…
Comment: how to find genes that are significantly expressed in brain cortex samples
by
Ram
43k
Normalized how?
Comment: Duplicate marking, read names, and the SRA
by
GenoMax
141k
With public data one has to work with what is there. If the information about position is absent then only thing that could be done is to l…
Comment: Installing/switching between versions of R/Rstudio/Bioconductor on personal mach
by
BioinfGuru
★ 1.7k
Or better yet. To have an R package that allows access to conda environments via "conda list env" so that environments can be switched with…
Comment: what's the genomic location and name of gene responsible for orange and black pa
by
GenoMax
141k
If GPT is right then it says that: > The specific gene responsible for the orange and non-orange (black or > gray) fur colors in cats is t…
Comment: what's the genomic location and name of gene responsible for orange and black pa
by
Jean-Karim Heriche
27k
As far as I know the Orange locus hasn't been mapped to a gene. Maybe this paper will help in narrowing the search: https://www.ncbi.nlm.ni…
Comment: Duplicate marking, read names, and the SRA
by
Luka
• 0
>Curios if there a reference for this? [Apparently it's not deprecated yet][1], but will be soon and the SRA intends for it to be at some …
Comment: Installing/switching between versions of R/Rstudio/Bioconductor on personal mach
by
Ram
43k
I prefer RStudio for new projects as well. The moment I need versions though, RStudio becomes a burden. I wish one could launch RStudio fro…
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