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116,494 results • Page
1 of 2330
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0
votes
0
replies
47
views
GTF file from Stringtie to R Studio for either Ballgown or DESeq2
Stringtie
Cufflinks
Ballgown
DESeq2
3 hours ago by
Nina
• 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
0
votes
1
reply
108
views
MEGA Analysis Issue on High-Performance Computer
phylogenetic-analysis
MEGA
updated 1 hour ago by
Ram
43k • written 4 hours ago by
Giorgio
• 0
0
votes
0
replies
52
views
Removing Illumina microarray probes with no expression HumanHT-12v4
microarray
HumanHT-12v4
Illumina
updated just now by
Ram
43k • written 5 hours ago by
Bioinformatician
• 0
0
votes
1
reply
122
views
Running blastp with BLAST+ 2.15.0 against custom database; need to identify hits
shotgun
metagenomics
blastp
taxonomy
updated 5 hours ago by
GenoMax
141k • written 7 hours ago by
rebecca.calvo
• 0
0
votes
0
replies
73
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
189
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 7 hours ago by
rheab1230
▴ 140
1
vote
4
replies
322
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 9 hours ago by
Ann
★ 2.4k
0
votes
0
replies
68
views
agilent microarray gpl data does not have gene symbol column
microarray
agilent
gpl
updated 8 hours ago by
Ram
43k • written 10 hours ago by
mja
• 0
0
votes
0
replies
78
views
scRNA Cluster frequency
CV
PCA
scRNA
Cluster-Frequency
10 hours ago by
Nitin
• 0
1
vote
5
replies
366
views
Duplicate marking, read names, and the SRA
SRA
MarkDuplicates
updated 7 hours ago by
GenoMax
141k • written 10 hours ago by
Luka
• 0
0
votes
0
replies
80
views
absolute path for symbolic links in Snakefile
Snakemake
updated 10 hours ago by
Ram
43k • written 10 hours ago by
yifangt86
▴ 60
0
votes
0
replies
74
views
Chemical structure validation
structure
cap
validation
metabolite
10 hours ago by
Rodolfo Adrián
• 0
2
votes
6
replies
990
views
Cellranger count error: Input FASTQ file ended prematurely
scRNA-seq
Cellranger
STARsolo
10X
updated 10 hours ago by
GenoMax
141k • written 8 months ago by
bp22
▴ 70
0
votes
1
reply
143
views
Downloading the raw microarray data from GEO
.gpr
microarray
.CEL
updated 10 hours ago by
GenoMax
141k • written 11 hours ago by
bioyas
▴ 10
0
votes
0
replies
91
views
Copy number variation plot
Copy-number-variation
genomics
updated 11 hours ago by
Ram
43k • written 12 hours ago by
Emmi
• 0
0
votes
5
replies
546
views
RNA seq differential expression analysis
RNA-seq
normalization
updated 12 hours ago by
BioinfGuru
★ 1.7k • written 1 day ago by
rrehimi
• 0
0
votes
0
replies
80
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 12 hours ago by
Ram
43k • written 13 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 13 hours ago by
ATpoint
81k • written 7.1 years ago by
boymin2020
▴ 80
4
votes
11
replies
674
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 15 hours ago by
BioinfGuru
★ 1.7k
1
vote
1
reply
318
views
Plink merge errors.
cygwin64
bed
PLINK
16 hours ago by
Dinmukhamed
• 0
0
votes
0
replies
96
views
Conversion to tree format
PLINK
bed
Figtree
SplitsTree
updated 12 hours ago by
Ram
43k • written 16 hours ago by
Dinmukhamed
• 0
0
votes
0
replies
98
views
miRDeep2: How to get the read counts
mirdeep2
18 hours ago by
Atul K.
• 0
1
vote
2
replies
360
views
Mapping cDNA sequence of a single gene to a genome not hosted at UCSC server (without Blat)
mapping
updated 19 hours ago by
Pierre Lindenbaum
161k • written 1 day ago by
rahu
• 0
0
votes
0
replies
106
views
Lncipedia GTF file error
Proteomics
updated 12 hours ago by
Ram
43k • written 20 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 20 hours ago by
colindaven
6.3k • written 15 months ago by
Dr.Animo
▴ 130
3
votes
2
replies
277
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
2
replies
299
views
Adding CB tag to bam file
samtools
bam
19 hours ago by
Maria
• 0
11
votes
12
replies
798
views
Downloaded pdb's on rcsb.org
rcsb
pdb
updated 1 day ago by
Ram
43k • written 1 day ago by
iamsmor
• 0
0
votes
0
replies
122
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
283
views
python file for coding potential calculator
cpc2.py
1 day ago by
Ashok
• 0
0
votes
2
replies
277
views
error in coding potential calculator CPC2
cpc
CPC2
coding-potential
1 day ago by
Ashok
• 0
0
votes
2
replies
303
views
miRNAs quantification using mirdeep2 tool
differential-expression
mirdeep2
miRNA
22 hours ago by
Ashok
• 0
5
votes
2
replies
382
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
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
1
vote
1
reply
285
views
Problem with Mirdeep2 and Randfold output
mirdeep2
Randfold
1 day ago by
otieno43
▴ 30
0
votes
2
replies
314
views
QC exclusion of A/T or G/C alleles to avoid strand issues
quality-control
SNV
QC
SNP
12 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
1
vote
4
replies
618
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
126
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
139
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
142
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
679
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
217
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
234
views
DEseq2
RNA-seq
DESeq2
updated 1 day ago by
Ram
43k • written 1 day ago by
rrehimi
• 0
0
votes
0
replies
143
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
289
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
116,494 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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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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