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39 results • Page
1 of 1
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Views
Votes
Replies
0
votes
0
replies
16
views
Using samtools with GCS (google cloud storage) on docker a docker container seems to give "Protocol Not Supported" error
samtools
gcs
22 minutes ago by
abhishekghadge
• 0
0
votes
0
replies
18
views
Running blastp with BLAST+ 2.15.0 against custom database; need to identify hits
shotgun
metagenomics
blastp
taxonomy
37 minutes ago by
rebecca.calvo
• 0
0
votes
1
reply
43
views
how to find genes that are significantly expressed in brain cortex samples
rna-seq
gene-expression
updated 1 hour ago by
Ram
43k • written 1 hour ago by
rheab1230
▴ 140
1
vote
4
replies
129
views
what's the genomic location and name of gene responsible for orange and black patches in calico cats
genomes
updated 27 minutes ago by
Matthias Zepper
4.5k • written 2 hours ago by
Ann
★ 2.4k
0
votes
0
replies
44
views
agilent microarray gpl data does not have gene symbol column
microarray
agilent
gpl
updated 2 hours ago by
Ram
43k • written 3 hours ago by
mja
• 0
0
votes
0
replies
52
views
scRNA Cluster frequency
CV
PCA
scRNA
Cluster-Frequency
3 hours ago by
Nitin
• 0
1
vote
5
replies
236
views
Duplicate marking, read names, and the SRA
SRA
MarkDuplicates
updated 1 hour ago by
GenoMax
141k • written 4 hours ago by
Luka
• 0
0
votes
0
replies
54
views
absolute path for symbolic links in Snakefile
Snakemake
updated 3 hours ago by
Ram
43k • written 4 hours ago by
yifangt86
▴ 60
0
votes
0
replies
51
views
Chemical structure validation
structure
cap
validation
metabolite
4 hours ago by
Rodolfo Adrián
• 0
2
votes
6
replies
961
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
110
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
66
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
514
views
RNA seq differential expression analysis
RNA-seq
normalization
updated 6 hours ago by
BioinfGuru
★ 1.7k • written 1 day ago by
rrehimi
• 0
0
votes
0
replies
57
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
137
views
Could you please assist in identifying this cluster?
single-cell
updated 5 hours ago by
Ram
43k • written 7 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
441
views
Tutorial:
Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
R
Ubuntu
Linux
Bioconductor
Rstudio
updated 1 hour ago by
Ram
43k • written 8 hours ago by
BioinfGuru
★ 1.7k
1
vote
1
reply
304
views
Plink merge errors.
cygwin64
bed
PLINK
9 hours ago by
Dinmukhamed
• 0
0
votes
0
replies
72
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
77
views
miRDeep2: How to get the read counts
mirdeep2
11 hours ago by
Atul K.
• 0
1
vote
2
replies
326
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
88
views
Lncipedia GTF file error
Proteomics
updated 5 hours ago by
Ram
43k • written 14 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 14 hours ago by
colindaven
6.3k • written 15 months ago by
Dr.Animo
▴ 130
3
votes
2
replies
248
views
Free/open source 23andme-like analysis
SNPs
genomics
NGS
VCF
7 hours ago by
joe
▴ 510
0
votes
2
replies
399
views
How to get the reference panel for UKBB
UKBB
GWAS
clump
21 hours ago by
航太郎
• 0
0
votes
2
replies
279
views
Adding CB tag to bam file
samtools
bam
12 hours ago by
Maria
• 0
11
votes
12
replies
776
views
Downloaded pdb's on rcsb.org
rcsb
pdb
updated 23 hours ago by
Ram
43k • written 1 day ago by
iamsmor
• 0
0
votes
2
replies
259
views
python file for coding potential calculator
cpc2.py
17 hours ago by
Ashok
• 0
0
votes
2
replies
254
views
error in coding potential calculator CPC2
cpc
CPC2
coding-potential
17 hours ago by
Ashok
• 0
0
votes
2
replies
279
views
miRNAs quantification using mirdeep2 tool
differential-expression
mirdeep2
miRNA
15 hours ago by
Ashok
• 0
0
votes
2
replies
282
views
QC exclusion of A/T or G/C alleles to avoid strand issues
quality-control
SNV
QC
SNP
6 hours ago by
_quantum_girl_
▴ 10
3
votes
3
replies
422
views
Korean human genome reference file
GWAS
reference
imputation
17 hours ago by
SeoGyun
• 0
1
vote
1
reply
301
views
Load a full GFF3 into annotation track using arrow (Apollo)
arrow
python-apollo
Apollo
4 hours ago by
renan.igor
• 0
0
votes
4
replies
497
views
Per base sequence content failed miserably
fastqc
sequence
trimmomatic
NGS
assembly
15 hours ago by
Kai Xin
• 0
2
votes
7
replies
721
views
Removing duplicates
duplicates
ONT
minimap2
updated 22 hours ago by
joe
▴ 510 • written 2 days ago by
quentinperriere
• 0
2
votes
3
replies
378
views
Ciriquant not configuring hisat2 indexed files
ciriquant
updated 8 hours ago by
Carlo Yague
8.6k • written 6 days ago by
Atul K.
• 0
5
votes
3
replies
668
views
Illumina reads preprocessing best practice for snp calling applications
Illumina
snp
updated 7 hours ago by
Enrique
• 0 • written 9 months ago by
Denis
▴ 310
34
votes
16
replies
20k
views
9 follow
Filtration Of Reads With Length Lower Than 30 From Bam
read
length
bam
updated 13 hours ago by
Hagen
▴ 10 • written 10.2 years ago by
filipzembol
▴ 180
39 results • Page
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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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