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116,487 results • Page
1 of 2330
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0
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agilent microarray gpl data does not have gene symbol column
microarray
agilent
gene_symbol
gpl
2 minutes ago by
mja
• 0
0
votes
0
replies
14
views
scRNA Cluster frequency
CV
PCA
scRNA
Cluster-Frequency
10 minutes ago by
Nitin
• 0
1
vote
2
replies
25
views
Duplicate marking, read names, and the SRA
SRA
MarkDuplicates
just now by
Luka
• 0
0
votes
0
replies
14
views
absolute path for symbolic links in Snakefile
Snakemake
updated 13 minutes ago by
Ram
43k • written 32 minutes ago by
yifangt86
▴ 60
0
votes
0
replies
17
views
Chemical structure validation
structure
cap
validation
metabolite
55 minutes ago by
Rodolfo Adrián
• 0
2
votes
6
replies
857
views
Cellranger count error: Input FASTQ file ended prematurely
scRNA-seq
Cellranger
STARsolo
10X
updated 45 minutes ago by
GenoMax
141k • written 8 months ago by
bp22
▴ 70
0
votes
1
reply
31
views
Downloading the raw microarray data from GEO
.gpr
microarray
.CEL
updated 42 minutes ago by
GenoMax
141k • written 1 hour ago by
bioyas
▴ 10
0
votes
0
replies
38
views
Copy number variation plot
Copy-number-variation
genomics
updated 1 hour ago by
Ram
43k • written 2 hours ago by
Emmi
• 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
5
replies
457
views
RNA seq differential expression analysis
RNA-seq
normalization
updated 2 hours ago by
BioinfGuru
★ 1.7k • written 1 day ago by
rrehimi
• 0
0
votes
0
replies
35
views
SNP calling with ANGSD and ngsLD. How many SNPs?
lcwgs
ngsTools
ANGSD
genomics
2 hours ago by
DanielEB_fisk
▴ 20
0
votes
1
reply
108
views
Could you please assist in identifying this cluster?
single-cell
updated 2 hours ago by
Ram
43k • written 3 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 3 hours ago by
ATpoint
81k • written 7.1 years ago by
boymin2020
▴ 80
4
votes
5
replies
133
views
Tutorial:
Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
R
Ubuntu
Linux
Bioconductor
Rstudio
updated 15 minutes ago by
Ram
43k • written 5 hours ago by
BioinfGuru
★ 1.7k
1
vote
1
reply
287
views
Plink merge errors.
cygwin64
bed
PLINK
6 hours ago by
Dinmukhamed
• 0
0
votes
0
replies
60
views
Conversion to tree format
PLINK
bed
Figtree
SplitsTree
updated 2 hours ago by
Ram
43k • written 5 hours ago by
Dinmukhamed
• 0
0
votes
0
replies
64
views
miRDeep2: How to get the read counts
mirdeep2
8 hours ago by
Atul K.
• 0
1
vote
2
replies
312
views
Mapping cDNA sequence of a single gene to a genome not hosted at UCSC server (without Blat)
mapping
updated 9 hours ago by
Pierre Lindenbaum
161k • written 20 hours ago by
rahu
• 0
0
votes
0
replies
79
views
Lncipedia GTF file error
Proteomics
updated 2 hours ago by
Ram
43k • written 10 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 10 hours ago by
colindaven
6.3k • written 15 months ago by
Dr.Animo
▴ 130
3
votes
2
replies
226
views
Free/open source 23andme-like analysis
SNPs
genomics
NGS
VCF
3 hours ago by
joe
▴ 510
0
votes
2
replies
386
views
How to get the reference panel for UKBB
UKBB
GWAS
clump
17 hours ago by
航太郎
• 0
0
votes
2
replies
264
views
Adding CB tag to bam file
samtools
bam
8 hours ago by
Maria
• 0
11
votes
12
replies
754
views
Downloaded pdb's on rcsb.org
rcsb
pdb
updated 19 hours ago by
Ram
43k • written 1 day ago by
iamsmor
• 0
0
votes
0
replies
98
views
create genewise sync file in popoolation
popoolation
updated 20 hours ago by
GenoMax
141k • written 22 hours ago by
N.Y.Wiyana-Hewage
• 0
0
votes
2
replies
248
views
python file for coding potential calculator
cpc2.py
14 hours ago by
Ashok
• 0
0
votes
2
replies
243
views
error in coding potential calculator CPC2
cpc
CPC2
coding-potential
14 hours ago by
Ashok
• 0
0
votes
2
replies
266
views
miRNAs quantification using mirdeep2 tool
differential-expression
mirdeep2
miRNA
11 hours ago by
Ashok
• 0
5
votes
2
replies
357
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
107
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
267
views
Problem with Mirdeep2 and Randfold output
mirdeep2
Randfold
1 day ago by
otieno43
▴ 30
0
votes
2
replies
228
views
QC exclusion of A/T or G/C alleles to avoid strand issues
quality-control
SNV
QC
SNP
2 hours ago by
_quantum_girl_
▴ 10
0
votes
0
replies
114
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
603
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
105
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
115
views
Difference when using difference number of pathways score to compare between 3 groups
GSVA
Limma
22 hours ago by
Chris
▴ 260
0
votes
0
replies
122
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
659
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
200
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
218
views
DEseq2
RNA-seq
DESeq2
updated 1 day ago by
Ram
43k • written 1 day ago by
rrehimi
• 0
0
votes
0
replies
122
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
276
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
123
views
Tutorial:
DNA Methylation: Sequencing Techniques
WGBS
RRBS
1 day ago by
Novogene
▴ 420
0
votes
1
reply
387
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
404
views
Korean human genome reference file
GWAS
reference
imputation
13 hours ago by
SeoGyun
• 0
3
votes
4
replies
403
views
SLURM submission problem: Indexing the Reference Genome is not done in STAR
align
RNA-Seq
linux
STAR
updated 1 day ago by
GenoMax
141k • written 1 day ago by
n_navy
• 0
0
votes
0
replies
126
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
136
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
136
views
Issues with SnpEff Assuming Circular Chromosomes in Eukaryotic Genome Analysis
snpEff
1 day ago by
ekirsch
• 0
116,487 results • Page
1 of 2330
Recent Votes
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
Comment: Load a full GFF3 into annotation track using arrow (Apollo)
Answer: ClusterProfiler enrichKEGG – remove organism name in plots?
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Popular Question
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Rodolfo Adrián
• 0
Scholar
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damian.szk
▴ 70
Popular Question
to
alphaflylizard
• 0
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GenoMax
141k
Popular Question
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Shicheng Guo
★ 9.4k
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DanielEB_fisk
▴ 20
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Pierre Lindenbaum
161k
Recent Replies
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…
Comment: Installing/switching between versions of R/Rstudio/Bioconductor on personal mach
by
BioinfGuru
★ 1.7k
Done. Thank you.
Comment: Installing/switching between versions of R/Rstudio/Bioconductor
by
GenoMax
141k
Perhaps add the word linux/ubuntu to the title? You have noted that the instructions are for Ubuntu in text.
Comment: Installing/switching between versions of R/Rstudio/Bioconductor
by
BioinfGuru
★ 1.7k
Thanks @Ram I'll add that to the intro. I'm the admin on my machine so I haven't found it necessary to install any other way. I'll try a fr…
Comment: Downloading the raw microarray data from GEO
by
GenoMax
141k
No GPR files with this data unless you ask the submitters for them directly. You can find the matrix of data here: https://ftp.ncbi.nlm.nih…
Comment: Cellranger count error: Input FASTQ file ended prematurely
by
GenoMax
141k
That is odd. Thanks for following-up and providing an explanation.
Answer: Cellranger count error: Input FASTQ file ended prematurely
by
bp22
▴ 70
Dear all, The reason for the error was due to the index (I1) fastq files, for example `SI-GA-A1_1_S1_L001_I1_001.fastq.gz` having a lo…
Comment: Installing/switching between versions of R/Rstudio/Bioconductor
by
Ram
43k
Your tutorial required `sudo` and thus is not doable for a majority of people. Any alternative to `sudo snap`?
Comment: Should I apply doublet detection for each pool seperately?
by
Ram
43k
Do not delete posts that have received feedback,
Comment: QC exclusion of A/T or G/C alleles to avoid strand issues
by
_quantum_girl_
▴ 10
They aren't merging any datasets. Just for reference the paper is this: https://www.nature.com/articles/s41380-022-01674-9#MOESM1. Citing: …
Comment: RNA seq differential expression analysis
by
BioinfGuru
★ 1.7k
https://help.galaxyproject.org/
Answer: RNA seq differential expression analysis
by
Mohamed Abderrahmane
▴ 10
The tool RSEM, which performs transcript quantification for RNA-Seq data, provides FPKM.
Comment: Illumina reads preprocessing best practice for snp calling applications
by
Enrique
• 0
Hi! I'm still interested in the step that you use for the SNP calling. Did you use `trimmomatic` or another tool for trimming before mappin…
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