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122,232 results • Page
10 of 2445
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1
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0
replies
5.6k
views
News:
Live Online course: Bioinformatic tools for transcriptomic data, Oct 2025
transcriptomics
RNAseq
10 weeks ago by
soledad.esteban
▴ 10
5
votes
5
replies
11k
views
Forum:
Tried building a compact sequence format with 4-bit storage
fasta
open-source
file-formats
data-storage
bioinformatics
updated 10 weeks ago by
Alex Reynolds
36k • written 10 weeks ago by
Pranava
▴ 30
0
votes
1
reply
7.8k
views
Gene Ontology Enrichment with LOC gene IDs in Common Carp (Cyprinus carpio)
ontology
gene
updated 10 weeks ago by
GenoMax
154k • written 10 weeks ago by
Naveen
• 0
1
vote
5
replies
11k
views
STARlong for pacbio Isoseq reads
STARlong
STAR
pacbio
ISOSEQ
updated 10 weeks ago by
YuZJ
• 0 • written 10 weeks ago by
Buffo
★ 2.5k
0
votes
0
replies
6.4k
views
News:
online course: R/Bioconductor for Mass Spectrometry and Proteomics
R
MassSpectrometry
Proteomics
Bioconductor
10 weeks ago by
Physalia-courses
★ 2.7k
0
votes
2
replies
9.0k
views
Transfer harmony-integrated scRNA-seq data to scanpy
scRNA-seq
harmony
updated 10 weeks ago by
Madiha
▴ 20 • written 2.2 years ago by
fifty_fifty
▴ 90
0
votes
0
replies
6.9k
views
News:
Live Online course: Bioinformatic tools for transcriptomic data, Oct 2025
Transcriptomic
analyses
updated 10 weeks ago by
GenoMax
154k • written 10 weeks ago by
soledad.esteban
▴ 10
0
votes
1
reply
7.2k
views
Pipeline for downloading, aligning, and curating influenza A and B sequences for primer design
Influenza
workflow
updated 10 weeks ago by
GenoMax
154k • written 10 weeks ago by
Mariano
• 0
0
votes
1
reply
7.0k
views
GTEx sQTL v8 – annotation version used?
qtl
gencode
sqtl
gtex
updated 10 weeks ago by
GenoMax
154k • written 10 weeks ago by
pedro.silvestre
• 0
1
vote
2
replies
7.5k
views
TCGA -derived Large RangeSummarizeExperient file
analysis
data
TCGA
updated 10 weeks ago by
ATpoint
90k • written 10 weeks ago by
Ben
• 0
3
votes
7
replies
11k
views
Yeast reference-based genome assembly
Reference
nanopore
yeast
genome
Assembly
updated 10 weeks ago by
colindaven
8.1k • written 10 weeks ago by
amy967107
• 0
0
votes
8
replies
9.8k
views
magpurify errors
magpurify
data
shotgun
updated 10 weeks ago by
GenoMax
154k • written 10 weeks ago by
shevch2009
▴ 20
0
votes
0
replies
6.1k
views
News:
online course: Population Genomics using aDNA Data
Paleogenomics
aDNA
PopulationGenomics
10 weeks ago by
Physalia-courses
★ 2.7k
2
votes
2
replies
8.3k
views
Structural Variant identification on pangenome graphs
SV
variant
structural
graph
genome
10 weeks ago by
Panos
★ 1.9k
23
votes
17
replies
40k
views
7 follow
Conversion of Gene Name to Ensembl ID
gene
RNA-Seq
R
genome
updated 10 weeks ago by
Thanujay S
• 0 • written 5.7 years ago by
bazok
▴ 40
6
votes
4
replies
8.9k
views
Is this PCA plot correct??
PCA
updated 10 weeks ago by
GenoMax
154k • written 11 weeks ago by
m00nphany
• 0
0
votes
2
replies
6.4k
views
Forum:
Splice junctions plots for long-read seq data
splice-junctions
alternative-splicing
long-read-sequencing
10 weeks ago by
alison.ludzki
• 0
0
votes
0
replies
5.6k
views
News:
Introduction to Nextflow course - online, 10–12 November
Pipeline
NGSdata
Nextflow
Reproducibility
Workflow-Manager
11 weeks ago by
Physalia-courses
★ 2.7k
33
votes
22
replies
36k
views
12 follow
Converting Ensembl Gene Ids To Hgnc Gene Name / Coordinates
ensembl
ucsc
genome
mapping
coordinates
updated 6 weeks ago by
Thanujay S
• 0 • written 14.1 years ago by
Ryan D
★ 3.4k
3
votes
4
replies
7.2k
views
How to debug faulty BBmap clumpify command?
bbmap
fastq
trimming
genome
10 weeks ago by
marongiu.luigi
▴ 770
5
votes
2
replies
6.8k
views
Fastq reads to csv - How can I make a csv with the read number of several fastq files in the same folder?
illumina
csv
read
fastq
count
updated 11 weeks ago by
GenoMax
154k • written 11 weeks ago by
alx.alo
• 0
1
vote
3
replies
6.6k
views
Mapping amplicon to a reference sequence with iteration / elongation
Barcoding
NGS
Mapping
updated 11 weeks ago by
mmahe
• 0 • written 4.6 years ago by
marion.couedel
▴ 10
0
votes
1
reply
6.0k
views
MERLIN haplotyping
MERLIN
updated 11 weeks ago by
Prashant
• 0 • written 3.4 years ago by
smb2174
▴ 20
1
vote
1
reply
6.3k
views
dbSNP VCF file compatible with GRch38.p14
vcf
samtools
updated 11 weeks ago by
GenoMax
154k • written 11 weeks ago by
Kelly
• 0
0
votes
0
replies
5.9k
views
News:
Single-Cell RNA-Seq Analysis
RNA-seq
Single
cell
updated 11 weeks ago by
GenoMax
154k • written 11 weeks ago by
oliverhooker
▴ 110
0
votes
0
replies
5.4k
views
News:
Introduction to Snakemake
Snakemake
updated 11 weeks ago by
GenoMax
154k • written 11 weeks ago by
oliverhooker
▴ 110
0
votes
0
replies
5.3k
views
News:
course - Introduction to Deep Learning for Biologists -Online, 3–7 November
MachineLearning
Python
ConvolutionalNeuralNetwork
DeepLearning
11 weeks ago by
Physalia-courses
★ 2.7k
5
votes
6
replies
11k
views
Is total miRNA in EV constant? Implications for library size normalization.
rna-seq
updated 10 weeks ago by
Gordon Smyth
★ 8.6k • written 11 weeks ago by
Thomas.H.Hampton
▴ 10
1
vote
0
replies
5.0k
views
Tool:
evorca: fast and minimal plmDCA in JAX
jax
python
protein-contact-prediction
bioinformatics
plmdca
11 weeks ago by
Shosuke
▴ 10
2
votes
9
replies
7.5k
views
6 follow
How to load sam.gz files on IGV?
visualization
genome
IGV
mapping
updated 11 weeks ago by
GenoMax
154k • written 11 weeks ago by
marongiu.luigi
▴ 770
1
vote
3
replies
6.7k
views
Where to find known sites for mm39 used by GATK4 BaseRecalibrator?
BaseRecalibrator
mouse
gatk
updated 11 weeks ago by
iamsmor
• 0 • written 3.6 years ago by
乙
▴ 240
2
votes
2
replies
7.1k
views
50K genomes to gene alignment
genomics
pirate
roary
updated 11 weeks ago by
michael.ante
★ 4.0k • written 11 weeks ago by
Madde
▴ 20
3
votes
1
reply
6.9k
views
Seurat - Warning after rescaling a subset of the data
FindVaraibleFeatures
r
seurat
updated 11 weeks ago by
Bastien Hervé
6.5k • written 11 weeks ago by
Assa Yeroslaviz
★ 1.9k
0
votes
1
reply
6.1k
views
DotPlot / VlnPlot Seurat
scrna-seq
significance-testing
test
seurat
updated 11 weeks ago by
Bastien Hervé
6.5k • written 11 weeks ago by
npont
▴ 20
7
votes
4
replies
6.7k
views
Forum:
Is there a need for a new Protein/Molecule viewer library?
Protein
Viewer
11 weeks ago by
Elbbard
• 0
8
votes
11
replies
12k
views
Regarding the usage of raw vs filtered bc matrices
10X
ranger
cell
snRNAseq
updated 11 weeks ago by
dsull
★ 7.8k • written 11 weeks ago by
biotrekker
▴ 110
6
votes
5
replies
7.3k
views
Tutorial:
Parallel AUGUSTUS Execution via GNU Parallel
augustus
genome
ngs
parallel
updated 11 weeks ago by
Meiers
• 0 • written 14 months ago by
Vijith
▴ 100
0
votes
0
replies
5.4k
views
News:
Assembling Genomes with Oxford Nanopore – A Hands-On Guide (Online course, 29 September – 3 October)
GenomeAssembly
Nanopore
longreads
11 weeks ago by
Physalia-courses
★ 2.7k
5
votes
3
replies
6.9k
views
Calculation variant frequencies for copy number events for a cohort
cnv
vcf
variant
frequency
11 weeks ago by
barslmn
★ 2.5k
2
votes
2
replies
8.1k
views
Custom Selection of GO Terms or Pathways in EnrichR Output
enrichR
ggplot2
R
Python
RNA-Seq
11 weeks ago by
mohammedtoufiq91
▴ 270
2
votes
3
replies
6.5k
views
Seurat not creating nCount_RNA and nFeature_RNA
Seurat
RStudio
updated 11 weeks ago by
bczvx1004
• 0 • written 17 months ago by
Nicholas
▴ 20
1
vote
1
reply
5.5k
views
Cibersortx server down?
cibersortx
updated 11 weeks ago by
GenoMax
154k • written 11 weeks ago by
Sam
• 0
0
votes
1
reply
5.5k
views
Available signature matrix for deconvoluting my bulk data using CIBERSORTX
bulk
seq
snRNA
deconvolution
CIBERSORTX
updated 11 weeks ago by
Sam
• 0 • written 11 weeks ago by
rajdeepboral00
▴ 70
3
votes
6
replies
7.9k
views
[vg giraffe] Unable to add read group to BAM file
vg
updated 9 weeks ago by
anovak
▴ 180 • written 11 weeks ago by
saruman
▴ 10
0
votes
11
replies
9.8k
views
7 follow
CIBERSORTx error: 'x' must be an array of at least two dimensions
signature
CIBERSORTx
matrix
updated 11 weeks ago by
ATpoint
90k • written 3.4 years ago by
Jie
• 0
6
votes
11
replies
11k
views
6 follow
ATAC-seq fragment size distribution - huge spike at 150 bp
ATAC-seq
updated 11 weeks ago by
yuntan1992
• 0 • written 3.7 years ago by
Simon
▴ 10
3
votes
15
replies
11k
views
6 follow
Tools for raw reads that estimate the percentage of reads that hit marker genes using protein BLAST or more advanced approaches based on protein HMM …
data
raw
reads
shotgun
11 weeks ago by
shevch2009
▴ 20
4
votes
5
replies
7.7k
views
RNAseq requirements: Biological and Technical replicates
RNA-seq
updated 11 weeks ago by
jkim
▴ 230 • written 12 weeks ago by
Rim
• 0
0
votes
2
replies
5.9k
views
How to connect the UCSC when i get the DMR.plot?
DNA
methylation
DMR
11 weeks ago by
Wren
• 0
9
votes
7
replies
10k
views
6 follow
how to start
clarity
updated 12 weeks ago by
patrickdm
▴ 260 • written 12 weeks ago by
raychmuthoni
• 0
122,232 results • Page
10 of 2445
Recent Votes
Answer: Feature Counts vs Salmon quantification
Answer: Chip-seq analysis Diffbind
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Comment: SyntaxError in file /snakefile, line 22: invalid decimal literal: None
Answer: Is this Rosalind inspired project actually useful?
Answer: Minimap2 segfaults when mapping Nanopore reads to a very large reference databas
Comment: How to normalize the intensity of bigwig files based on a group of house-keeping
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Comment: "sortmerna" quitting early--is this is a memory issue?
by
Andrew
• 0
Ok, here's the output: https://pastebin.com/uEHSckHS This run had the working directory in the default location, in sortmerna\run, but it …
Answer: Problems in Molecular Docking in Autodock vina
by
Anonsirs
• 0
Try to re run the command by first starting meeko and rdkit . to convert PDB files to PDQT files. It can help vina recognize the atom . a…
Comment: "sortmerna" quitting early--is this is a memory issue?
by
Andrew
• 0
Do you mean the maximum % RAM usage it reaches right before the moment it quits? As I said, the computer has 16 GB RAM, and the run fails w…
Comment: Chip-seq analysis Diffbind
by
Irene
▴ 10
Thank you very much for always answering my doubts and questions. I truly value and appreciate it because it helps me understand the result…
Comment: Minimap2 segfaults when mapping Nanopore reads to a very large reference databas
by
firefox91
▴ 10
Many thanks !
Answer: Re-assembling old RNA-seq reads vs. using an existing transcriptome assembly
by
GenoMax
154k
> I have access to both the raw reads and the previously assembled transcriptome submitted to TSA. and > I am trying to determine wheth…
Answer: Re-assembling old RNA-seq reads vs. using an existing transcriptome assembly
by
dthorbur
★ 3.2k
There are a few factors to consider: **The quality of the existing reference.** If there is a high quality chromosome level assembly,…
Comment: "sortmerna" quitting early--is this is a memory issue?
by
colindaven
8.1k
Pls add the output and your system (especially RAM), no one here can guess.
Answer: Power calculations for differentially methylated DNA samples from sequencing
by
colindaven
8.1k
There are software packages for power analysis such as https://academic.oup.com/bioinformaticsadvances/article/5/1/vbaf150/8173951.
Comment: Data integration single cell using Harmony
by
Arup Ghosh
3.5k
Run QC for each sample separately, then merge run SCTransform, PCA, then Harmony, UMAP, FindNeighbors and FindClusters.
Comment: Data integration single cell using Harmony
by
_deb
• 0
Thank you for the quick answer. I still have a doubt. It would be better to pre-process each sample separately (*filtering, SCTransform…
Comment: Issue while running Kenddata.
by
rana.elromh
• 0
I checked the memory before executing this command. I made a bash script on Ubuntu to run it on 15 folders. But, this problem happened in f…
Comment: Prokka output genes clusterization by function
by
Mensur Dlakic
★ 30k
Many proteins have multiple domains, and are correctly classified with multiple KO numbers. That's not a bug in `kofam_scan` but rather a r…
Comment: mapping sequences on specific region of bacteria genome
by
samuel.a.odonnell
▴ 650
If you want to visualise the mapping; take a look at using IGV. It just requires the genome you used to map the reads and the BAM output (n…
Comment: Prokka output genes clusterization by function
by
shevch2009
▴ 20
Thanks, I had completely forgotten that METABOLIC works with protein sequences. That will work :) I was just trying to figure out how peop…
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