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116,488 results • Page
1 of 2330
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0
votes
0
replies
14
views
what's the genomic location and name of gene responsible for orange and black patches in calico cats
genomes
18 minutes ago by
Ann
★ 2.4k
0
votes
0
replies
19
views
agilent microarray gpl data does not have gene symbol column
microarray
agilent
gene_symbol
gpl
1 hour ago by
mja
• 0
0
votes
0
replies
25
views
scRNA Cluster frequency
CV
PCA
scRNA
Cluster-Frequency
1 hour ago by
Nitin
• 0
1
vote
3
replies
84
views
Duplicate marking, read names, and the SRA
SRA
MarkDuplicates
updated 50 minutes ago by
GenoMax
141k • written 1 hour ago by
Luka
• 0
0
votes
0
replies
23
views
absolute path for symbolic links in Snakefile
Snakemake
updated 1 hour ago by
Ram
43k • written 1 hour ago by
yifangt86
▴ 60
0
votes
0
replies
24
views
Chemical structure validation
structure
cap
validation
metabolite
2 hours ago by
Rodolfo Adrián
• 0
2
votes
6
replies
890
views
Cellranger count error: Input FASTQ file ended prematurely
scRNA-seq
Cellranger
STARsolo
10X
updated 1 hour ago by
GenoMax
141k • written 8 months ago by
bp22
▴ 70
0
votes
1
reply
57
views
Downloading the raw microarray data from GEO
.gpr
microarray
.CEL
updated 1 hour ago by
GenoMax
141k • written 2 hours ago by
bioyas
▴ 10
0
votes
0
replies
50
views
Copy number variation plot
Copy-number-variation
genomics
updated 3 hours ago by
Ram
43k • written 3 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
494
views
RNA seq differential expression analysis
RNA-seq
normalization
updated 3 hours ago by
BioinfGuru
★ 1.7k • written 1 day ago by
rrehimi
• 0
0
votes
0
replies
42
views
SNP calling with ANGSD and ngsLD. How many SNPs?
lcwgs
ngsTools
ANGSD
genomics
4 hours ago by
DanielEB_fisk
▴ 20
0
votes
1
reply
119
views
Could you please assist in identifying this cluster?
single-cell
updated 3 hours ago by
Ram
43k • written 4 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 4 hours ago by
ATpoint
81k • written 7.1 years ago by
boymin2020
▴ 80
4
votes
6
replies
218
views
Tutorial:
Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
R
Ubuntu
Linux
Bioconductor
Rstudio
30 minutes ago by
BioinfGuru
★ 1.7k
1
vote
1
reply
292
views
Plink merge errors.
cygwin64
bed
PLINK
7 hours ago by
Dinmukhamed
• 0
0
votes
0
replies
64
views
Conversion to tree format
PLINK
bed
Figtree
SplitsTree
updated 3 hours ago by
Ram
43k • written 7 hours ago by
Dinmukhamed
• 0
0
votes
0
replies
68
views
miRDeep2: How to get the read counts
mirdeep2
9 hours ago by
Atul K.
• 0
1
vote
2
replies
318
views
Mapping cDNA sequence of a single gene to a genome not hosted at UCSC server (without Blat)
mapping
updated 10 hours ago by
Pierre Lindenbaum
161k • written 22 hours ago by
rahu
• 0
0
votes
0
replies
80
views
Lncipedia GTF file error
Proteomics
updated 3 hours ago by
Ram
43k • written 11 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 11 hours ago by
colindaven
6.3k • written 15 months ago by
Dr.Animo
▴ 130
3
votes
2
replies
233
views
Free/open source 23andme-like analysis
SNPs
genomics
NGS
VCF
4 hours ago by
joe
▴ 510
0
votes
2
replies
388
views
How to get the reference panel for UKBB
UKBB
GWAS
clump
18 hours ago by
航太郎
• 0
0
votes
2
replies
269
views
Adding CB tag to bam file
samtools
bam
10 hours ago by
Maria
• 0
11
votes
12
replies
759
views
Downloaded pdb's on rcsb.org
rcsb
pdb
updated 20 hours ago by
Ram
43k • written 1 day ago by
iamsmor
• 0
0
votes
0
replies
100
views
create genewise sync file in popoolation
popoolation
updated 21 hours ago by
GenoMax
141k • written 23 hours ago by
N.Y.Wiyana-Hewage
• 0
0
votes
2
replies
252
views
python file for coding potential calculator
cpc2.py
15 hours ago by
Ashok
• 0
0
votes
2
replies
245
views
error in coding potential calculator CPC2
cpc
CPC2
coding-potential
15 hours ago by
Ashok
• 0
0
votes
2
replies
268
views
miRNAs quantification using mirdeep2 tool
differential-expression
mirdeep2
miRNA
13 hours ago by
Ashok
• 0
5
votes
2
replies
358
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
108
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
268
views
Problem with Mirdeep2 and Randfold output
mirdeep2
Randfold
1 day ago by
otieno43
▴ 30
0
votes
2
replies
255
views
QC exclusion of A/T or G/C alleles to avoid strand issues
quality-control
SNV
QC
SNP
3 hours ago by
_quantum_girl_
▴ 10
0
votes
0
replies
115
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
604
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
107
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
118
views
Difference when using difference number of pathways score to compare between 3 groups
GSVA
Limma
23 hours ago by
Chris
▴ 260
0
votes
0
replies
123
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
660
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
202
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
219
views
DEseq2
RNA-seq
DESeq2
updated 1 day ago by
Ram
43k • written 1 day ago by
rrehimi
• 0
0
votes
0
replies
125
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
279
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
124
views
Tutorial:
DNA Methylation: Sequencing Techniques
WGBS
RRBS
1 day ago by
Novogene
▴ 420
0
votes
1
reply
388
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
407
views
Korean human genome reference file
GWAS
reference
imputation
14 hours ago by
SeoGyun
• 0
3
votes
4
replies
405
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
127
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
138
views
How to root an unrooted tree with a known root tree?
phylogenetics
rooting
R
1 day ago by
P.
• 0
116,488 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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Rodolfo Adrián
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damian.szk
▴ 70
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alphaflylizard
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141k
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Recent Replies
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…
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
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