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40 results • Page
1 of 1
Sort: Rank
Rank
Views
Votes
Replies
0
votes
0
replies
12
views
CpGtools no output
methylation
cpgtools
30 minutes ago by
Anna
• 0
0
votes
0
replies
17
views
GTF file from Stringtie to R Studio for either Ballgown or DESeq2
Stringtie
Cufflinks
Ballgown
DESeq2
36 minutes ago by
Nina
• 0
0
votes
1
reply
56
views
MEGA Analysis Issue on High-Performance Computer
phylogenetic
analysis
bioinformatics
MEGA
updated 1 hour ago by
Mensur Dlakic
★ 27k • written 2 hours ago by
Giorgio
• 0
0
votes
0
replies
33
views
Removing Illumina microarray probes with no expression HumanHT-12v4
Low
expression
microarray
HumanHT-12v4
Illumina
2 hours ago by
Bioinformatician
• 0
0
votes
1
reply
87
views
Running blastp with BLAST+ 2.15.0 against custom database; need to identify hits
shotgun
metagenomics
blastp
taxonomy
updated 2 hours ago by
GenoMax
141k • written 4 hours ago by
rebecca.calvo
• 0
0
votes
0
replies
55
views
Using samtools with GCS (google cloud storage) on docker a docker container seems to give "Protocol Not Supported" error
samtools
gcs
4 hours ago by
abhishekghadge
• 0
0
votes
2
replies
136
views
how to find genes that are significantly expressed in brain cortex samples
rna-seq
gene-expression
2 hours ago by
rheab1230
▴ 140
1
vote
4
replies
285
views
what's the genomic location and name of gene responsible for orange and black patches in calico cats
genomes
updated 4 hours ago by
Matthias Zepper
4.5k • written 6 hours ago by
Ann
★ 2.4k
0
votes
0
replies
55
views
agilent microarray gpl data does not have gene symbol column
microarray
agilent
gpl
updated 5 hours ago by
Ram
43k • written 7 hours ago by
mja
• 0
0
votes
0
replies
65
views
scRNA Cluster frequency
CV
PCA
scRNA
Cluster-Frequency
7 hours ago by
Nitin
• 0
1
vote
5
replies
340
views
Duplicate marking, read names, and the SRA
SRA
MarkDuplicates
updated 5 hours ago by
GenoMax
141k • written 7 hours ago by
Luka
• 0
0
votes
0
replies
67
views
absolute path for symbolic links in Snakefile
Snakemake
updated 7 hours ago by
Ram
43k • written 7 hours ago by
yifangt86
▴ 60
0
votes
0
replies
61
views
Chemical structure validation
structure
cap
validation
metabolite
8 hours ago by
Rodolfo Adrián
• 0
2
votes
6
replies
981
views
Cellranger count error: Input FASTQ file ended prematurely
scRNA-seq
Cellranger
STARsolo
10X
updated 8 hours ago by
GenoMax
141k • written 8 months ago by
bp22
▴ 70
0
votes
1
reply
129
views
Downloading the raw microarray data from GEO
.gpr
microarray
.CEL
updated 7 hours ago by
GenoMax
141k • written 8 hours ago by
bioyas
▴ 10
0
votes
0
replies
78
views
Copy number variation plot
Copy-number-variation
genomics
updated 9 hours ago by
Ram
43k • written 9 hours ago by
Emmi
• 0
0
votes
5
replies
533
views
RNA seq differential expression analysis
RNA-seq
normalization
updated 10 hours ago by
BioinfGuru
★ 1.7k • written 1 day ago by
rrehimi
• 0
0
votes
0
replies
69
views
SNP calling with ANGSD and ngsLD. How many SNPs?
lcwgs
ngsTools
ANGSD
genomics
10 hours ago by
DanielEB_fisk
▴ 20
0
votes
1
reply
152
views
Could you please assist in identifying this cluster?
single-cell
updated 9 hours ago by
Ram
43k • written 10 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 11 hours ago by
ATpoint
81k • written 7.1 years ago by
boymin2020
▴ 80
4
votes
10
replies
603
views
Tutorial:
Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
R
Ubuntu
Linux
Bioconductor
Rstudio
2 hours ago by
BioinfGuru
★ 1.7k
1
vote
1
reply
312
views
Plink merge errors.
cygwin64
bed
PLINK
13 hours ago by
Dinmukhamed
• 0
0
votes
0
replies
84
views
Conversion to tree format
PLINK
bed
Figtree
SplitsTree
updated 9 hours ago by
Ram
43k • written 13 hours ago by
Dinmukhamed
• 0
0
votes
0
replies
86
views
miRDeep2: How to get the read counts
mirdeep2
15 hours ago by
Atul K.
• 0
1
vote
2
replies
345
views
Mapping cDNA sequence of a single gene to a genome not hosted at UCSC server (without Blat)
mapping
updated 17 hours ago by
Pierre Lindenbaum
161k • written 1 day ago by
rahu
• 0
0
votes
0
replies
96
views
Lncipedia GTF file error
Proteomics
updated 9 hours ago by
Ram
43k • written 17 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 18 hours ago by
colindaven
6.3k • written 15 months ago by
Dr.Animo
▴ 130
3
votes
2
replies
263
views
Free/open source 23andme-like analysis
SNPs
genomics
NGS
VCF
11 hours ago by
joe
▴ 510
0
votes
2
replies
288
views
Adding CB tag to bam file
samtools
bam
16 hours ago by
Maria
• 0
0
votes
2
replies
273
views
python file for coding potential calculator
cpc2.py
21 hours ago by
Ashok
• 0
0
votes
2
replies
265
views
error in coding potential calculator CPC2
cpc
CPC2
coding-potential
21 hours ago by
Ashok
• 0
0
votes
2
replies
290
views
miRNAs quantification using mirdeep2 tool
differential-expression
mirdeep2
miRNA
19 hours ago by
Ashok
• 0
0
votes
2
replies
299
views
QC exclusion of A/T or G/C alleles to avoid strand issues
quality-control
SNV
QC
SNP
9 hours ago by
_quantum_girl_
▴ 10
3
votes
3
replies
433
views
Korean human genome reference file
GWAS
reference
imputation
20 hours ago by
SeoGyun
• 0
1
vote
1
reply
311
views
Load a full GFF3 into annotation track using arrow (Apollo)
arrow
python-apollo
Apollo
8 hours ago by
renan.igor
• 0
0
votes
4
replies
507
views
Per base sequence content failed miserably
fastqc
sequence
trimmomatic
NGS
assembly
19 hours ago by
Kai Xin
• 0
2
votes
3
replies
383
views
Ciriquant not configuring hisat2 indexed files
ciriquant
updated 11 hours ago by
Carlo Yague
8.6k • written 6 days ago by
Atul K.
• 0
5
votes
3
replies
678
views
Illumina reads preprocessing best practice for snp calling applications
Illumina
snp
updated 10 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 17 hours ago by
Hagen
▴ 10 • written 10.2 years ago by
filipzembol
▴ 180
40 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
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…
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…
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