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116,491 results • Page
1 of 2330
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0
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Using samtools with GCS (google cloud storage) on docker a docker container seems to give "Protocol Not Supported" error
samtools
gcs
just now by
abhishekghadge
• 0
0
votes
0
replies
13
views
Running blastp with BLAST+ 2.15.0 against custom database; need to identify hits
shotgun
metagenomics
blastp
taxonomy
9 minutes ago by
rebecca.calvo
• 0
0
votes
1
reply
38
views
how to find genes that are significantly expressed in brain cortex samples
rna-seq
gene-expression
updated 41 minutes ago by
Ram
43k • written 48 minutes ago by
rheab1230
▴ 140
1
vote
4
replies
102
views
what's the genomic location and name of gene responsible for orange and black patches in calico cats
genomes
updated just now by
Matthias Zepper
4.5k • written 2 hours ago by
Ann
★ 2.4k
0
votes
0
replies
40
views
agilent microarray gpl data does not have gene symbol column
microarray
agilent
gpl
updated 1 hour ago by
Ram
43k • written 3 hours ago by
mja
• 0
0
votes
0
replies
49
views
scRNA Cluster frequency
CV
PCA
scRNA
Cluster-Frequency
3 hours ago by
Nitin
• 0
795
votes
167
replies
141k
views
109 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 12 weeks ago by
Biostar
2.6k • written 7.4 years ago by
Istvan Albert
100k
1
vote
5
replies
217
views
Duplicate marking, read names, and the SRA
SRA
MarkDuplicates
updated 54 minutes ago by
GenoMax
141k • written 3 hours ago by
Luka
• 0
0
votes
0
replies
49
views
absolute path for symbolic links in Snakefile
Snakemake
updated 3 hours ago by
Ram
43k • written 3 hours ago by
yifangt86
▴ 60
0
votes
0
replies
47
views
Chemical structure validation
structure
cap
validation
metabolite
4 hours ago by
Rodolfo Adrián
• 0
2
votes
6
replies
958
views
Cellranger count error: Input FASTQ file ended prematurely
scRNA-seq
Cellranger
STARsolo
10X
updated 4 hours ago by
GenoMax
141k • written 8 months ago by
bp22
▴ 70
0
votes
1
reply
104
views
Downloading the raw microarray data from GEO
.gpr
microarray
.CEL
updated 4 hours ago by
GenoMax
141k • written 4 hours ago by
bioyas
▴ 10
0
votes
0
replies
64
views
Copy number variation plot
Copy-number-variation
genomics
updated 5 hours ago by
Ram
43k • written 5 hours ago by
Emmi
• 0
0
votes
5
replies
512
views
RNA seq differential expression analysis
RNA-seq
normalization
updated 5 hours ago by
BioinfGuru
★ 1.7k • written 1 day ago by
rrehimi
• 0
0
votes
0
replies
56
views
SNP calling with ANGSD and ngsLD. How many SNPs?
lcwgs
ngsTools
ANGSD
genomics
6 hours ago by
DanielEB_fisk
▴ 20
0
votes
1
reply
133
views
Could you please assist in identifying this cluster?
single-cell
updated 5 hours ago by
Ram
43k • written 6 hours ago by
Kazo
• 0
4
votes
9
replies
2.5k
views
Tool:
CANEapp, a user-friendly application for automated next generation transcriptomic data analysis
RNA-Seq
written 8.2 years ago by
dvelmeshev
• 0
2
votes
7
replies
5.1k
views
6 follow
Memory usage of picard Samsort
Picard
SortSam
updated 7 hours ago by
ATpoint
81k • written 7.1 years ago by
boymin2020
▴ 80
4
votes
9
replies
407
views
Tutorial:
Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
R
Ubuntu
Linux
Bioconductor
Rstudio
updated 30 minutes ago by
Ram
43k • written 8 hours ago by
BioinfGuru
★ 1.7k
1
vote
1
reply
298
views
Plink merge errors.
cygwin64
bed
PLINK
9 hours ago by
Dinmukhamed
• 0
0
votes
0
replies
70
views
Conversion to tree format
PLINK
bed
Figtree
SplitsTree
updated 5 hours ago by
Ram
43k • written 9 hours ago by
Dinmukhamed
• 0
0
votes
0
replies
75
views
miRDeep2: How to get the read counts
mirdeep2
11 hours ago by
Atul K.
• 0
1
vote
2
replies
325
views
Mapping cDNA sequence of a single gene to a genome not hosted at UCSC server (without Blat)
mapping
updated 13 hours ago by
Pierre Lindenbaum
161k • written 1 day ago by
rahu
• 0
0
votes
0
replies
87
views
Lncipedia GTF file error
Proteomics
updated 5 hours ago by
Ram
43k • written 13 hours ago by
atharvakarkare14
▴ 10
7
votes
3
replies
2.7k
views
Tutorial:
Prediction of Ribosomal RNA Genes Using RNAmmer Software
Annotation
rRNA
RNAmmer
Genome
updated 13 hours ago by
colindaven
6.3k • written 15 months ago by
Dr.Animo
▴ 130
3
votes
2
replies
246
views
Free/open source 23andme-like analysis
SNPs
genomics
NGS
VCF
7 hours ago by
joe
▴ 510
0
votes
2
replies
398
views
How to get the reference panel for UKBB
UKBB
GWAS
clump
20 hours ago by
航太郎
• 0
0
votes
2
replies
276
views
Adding CB tag to bam file
samtools
bam
12 hours ago by
Maria
• 0
11
votes
12
replies
772
views
Downloaded pdb's on rcsb.org
rcsb
pdb
updated 22 hours ago by
Ram
43k • written 1 day ago by
iamsmor
• 0
0
votes
0
replies
106
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
257
views
python file for coding potential calculator
cpc2.py
17 hours ago by
Ashok
• 0
0
votes
2
replies
251
views
error in coding potential calculator CPC2
cpc
CPC2
coding-potential
17 hours ago by
Ashok
• 0
0
votes
2
replies
276
views
miRNAs quantification using mirdeep2 tool
differential-expression
mirdeep2
miRNA
15 hours ago by
Ashok
• 0
5
votes
2
replies
363
views
How to compare the quality of assemblies
nextdenovo
assembly
hifiasm
pacbio
updated 1 day ago by
shelkmike
★ 1.2k • written 1 day ago by
kirillkirilenko
▴ 40
0
votes
0
replies
111
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
1
vote
1
reply
271
views
Problem with Mirdeep2 and Randfold output
mirdeep2
Randfold
1 day ago by
otieno43
▴ 30
0
votes
2
replies
277
views
QC exclusion of A/T or G/C alleles to avoid strand issues
quality-control
SNV
QC
SNP
5 hours ago by
_quantum_girl_
▴ 10
0
votes
0
replies
120
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
1
vote
4
replies
607
views
What happened to Tombo Re-squiggle
Tombo
resquiggle
ONT
updated 1 day ago by
Ram
43k • written 3 months ago by
turcoa1
• 0
0
votes
0
replies
110
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
122
views
Difference when using difference number of pathways score to compare between 3 groups
GSVA
Limma
1 day ago by
Chris
▴ 260
0
votes
0
replies
127
views
News:
Online course: Meta-analysis in R
Meta-Analysis
Statistics
R
updated 1 day ago by
Ram
43k • written 1 day ago by
carlopecoraro2
★ 2.5k
1
vote
9
replies
665
views
How can I retrieve wheat lysine non-acetylated sequences from the UniProt database?
UniProt
updated 1 day ago by
Elisabeth Gasteiger
★ 2.4k • written 1 day ago by
Jacky
• 0
0
votes
1
reply
205
views
10x VDJ (TCR/BCR) BAM to fastq
TCR
VDJ
BCR
10x
updated 1 day ago by
GenoMax
141k • written 1 day ago by
predeus
★ 1.9k
0
votes
1
reply
222
views
DEseq2
RNA-seq
DESeq2
updated 1 day ago by
Ram
43k • written 1 day ago by
rrehimi
• 0
0
votes
0
replies
130
views
News:
Course - Agent-Based Modelling Using NetLogo - University of Lodz, Poland
Netlogo
Individual-Based-Models
Agent-Based-Models
updated 1 day ago by
Ram
43k • written 1 day ago by
carlopecoraro2
★ 2.5k
4
votes
2
replies
282
views
Assume "yes" as the answer to any prompts with bioconda
docker
container
bioconda
updated 1 day ago by
Juke34
8.5k • written 1 day ago by
njornet
▴ 20
1
vote
0
replies
130
views
Tutorial:
DNA Methylation: Sequencing Techniques
WGBS
RRBS
1 day ago by
Novogene
▴ 420
0
votes
1
reply
390
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
3
votes
3
replies
419
views
Korean human genome reference file
GWAS
reference
imputation
16 hours ago by
SeoGyun
• 0
116,491 results • Page
1 of 2330
Recent Votes
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
Comment: Installing/switching between versions of R/Rstudio/Bioconductor
Comment: Installing/switching between versions of R/Rstudio/Bioconductor
Comment: Installing/switching between versions of R/Rstudio/Bioconductor
Answer: Cellranger count error: Input FASTQ file ended prematurely
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Recent Replies
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…
Comment: what's the genomic location and name of gene responsible for orange and black pa
by
GenoMax
141k
According to ChatGPT: The gene responsible for the orange and black patches of fur in calico cats (and tortoiseshell cats) is the X-linked …
Comment: Installing/switching between versions of R/Rstudio/Bioconductor on personal mach
by
BioinfGuru
★ 1.7k
Certainly true. Switching versions is way simpler that way, at the cost of the familiarity of the Rstudio IDE - especially if the code is w…
Comment: Duplicate marking, read names, and the SRA
by
GenoMax
141k
> fastq-dump is deprecated Curios if there a reference for this? `fasterq-dump` seems to allow for parallel streams but `fastq-dump` is st…
Comment: Duplicate marking, read names, and the SRA
by
Luka
• 0
>In many cases those remain recoverable using the -F option when you dump the data (cloud download not required) The -F option (or any equ…
Answer: Duplicate marking, read names, and the SRA
by
GenoMax
141k
To be specific, not every dataset in SRA loses the original identifiers. In many cases those remain recoverable using the `-F` option when …
Comment: Installing/switching between versions of R/Rstudio/Bioconductor on personal mach
by
Ram
43k
To use different versions of R and bioconductor, you don't really need RStudio. One can simply create new conda environments with the requi…
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