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122,232 results • Page
16 of 2445
Sort: Rank
Rank
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Votes
Replies
1
vote
3
replies
705
views
Download data from BV-BRC
bv-brc
arm
download
bvbrc
gene
updated 4 months ago by
GenoMax
154k • written 4 months ago by
rica01
• 0
2
votes
3
replies
904
views
Splitting chromosomes into contigs within BAM and GTF files
samtools
gtf
chromosome
annotation
bam
updated 4 months ago by
rfran010
★ 1.7k • written 4 months ago by
MAB
▴ 10
0
votes
3
replies
720
views
concoct in metawrap binning module - use all available threads instead of requested
binning
concoct
metawrap
module
4 months ago by
shevch2009
▴ 20
3
votes
17
replies
1.8k
views
Inverted TSS Enrichment Plot
ATACSeq
deeptools
4 months ago by
nmalexan
• 0
6
votes
1
reply
1.0k
views
hg38 vs GRCh38 chr prefix
human
genome
reference
updated 4 months ago by
GenoMax
154k • written 4 months ago by
DBScan
▴ 530
2
votes
4
replies
2.0k
views
Problem using FastML for ancestral sequence reconstruction
FastML
ancestral-sequence-reconstruction
fastml.std
updated 4 months ago by
christian.baumann
▴ 10 • written 3.4 years ago by
CM
• 0
2
votes
1
reply
484
views
Too many contigs in Spades output
spades
Assembly
updated 4 months ago by
GenoMax
154k • written 4 months ago by
waqaskhokhar999
▴ 160
1
vote
3
replies
661
views
How to handle contamination in 16s amplicon data
16s
amplicon
updated 4 months ago by
GenoMax
154k • written 4 months ago by
1769mkc
★ 1.3k
4
votes
12
replies
1.7k
views
Strandedness issues in STAR quantification
STAR
stranded
updated 4 months ago by
GenoMax
154k • written 4 months ago by
marek.gierlinski
▴ 50
7
votes
8
replies
1.4k
views
RNA-seq low quality sample in downstream analysis
Mitochondrial
genes
RNA-seq
DESeq2
updated 4 months ago by
Aleksandra
▴ 190 • written 4 months ago by
Yingying
▴ 60
3
votes
3
replies
3.1k
views
Transcript length from ensembl database
RNA-seq
transcriptomics
updated 4 months ago by
colindaven
8.1k • written 3.8 years ago by
Dominik
• 0
0
votes
0
replies
359
views
Differential Abundance Analysis (for metagenomics)
metagenomics
differential
shotgun
analysis
4 months ago by
aerotolerant
• 0
1
vote
1
reply
558
views
Blog:
Rust in Bioinformatics monthly newsletter
newsletter
Rust
updated 4 months ago by
cmdcolin
★ 4.4k • written 4 months ago by
Andrew
▴ 10
1
vote
2
replies
639
views
Discrepancy in gene expression between cellranger and velocyto pipeline
velocyto
scvelo
seurat
scRNA
4 months ago by
sarang.chafle
• 0
5
votes
8
replies
1.2k
views
How to solve this featureCounts problem ?
paired-end
RNA-seq
Bioinformatic
Quantification
updated 4 months ago by
ATpoint
90k • written 4 months ago by
AIMAR
▴ 70
0
votes
0
replies
385
views
Help us with our Uni assignment! - fill out a form
visualisation
dashboard
4 months ago by
Kshirin
• 0
0
votes
0
replies
403
views
dRep Output
metagenomics
MAGs
dRep
4 months ago by
pranjalarun10
• 0
0
votes
0
replies
790
views
News:
Course: Intro to Network Analysis, Sept, 2025.
python
network
analysis
4 months ago by
soledad.esteban
▴ 10
2
votes
9
replies
1.4k
views
Annotation comparison files on NCBI of gene assembly
annotation
updated 4 months ago by
GenoMax
154k • written 4 months ago by
zirui
• 0
1
vote
1
reply
1.0k
views
Kraken2/bracken with 16S sequencing downstream analysis
microbiome
QIIME2
DADA2
metagenomics
kraken2
updated 4 months ago by
andres.firrincieli
3.9k • written 4 months ago by
Isidro
• 0
0
votes
0
replies
923
views
News:
Online Course – LLM-based tools for R (28 & 31 October 2025)
LLMs
AI
R
4 months ago by
Physalia-courses
★ 2.7k
0
votes
1
reply
566
views
inferCNV on Visium 10X: lower residual expression in tumoral spots (heatmap interpretation)
inferCNV
CNV
Visium
score
updated 4 months ago by
GenoMax
154k • written 4 months ago by
Gabriele
• 0
0
votes
2
replies
749
views
Two config files for one Snakemake file
config
yaml
snakemake
4 months ago by
Xiaokang
▴ 80
8
votes
4
replies
866
views
Exome data analysis computing resources requirement query
exome
updated 4 months ago by
GenoMax
154k • written 4 months ago by
1769mkc
★ 1.3k
6
votes
5
replies
11k
views
TCGA MSI status
TCGA
clinical
MSI
updated 4 months ago by
GenoMax
154k • written 9.1 years ago by
jan
▴ 170
0
votes
6
replies
946
views
Summing the counts of duplicated genes in RNA seq data?
genes
Duplicated
4 months ago by
toobavaraste
• 0
2
votes
0
replies
419
views
Assembling a derivative chromosome from ONT WGS data
ONT
assembly
Whole-Genome
4 months ago by
Noah
▴ 30
2
votes
5
replies
925
views
[VG sim, surject, giraffe] How to remove a sample from GFA/GBZ graph
vg
4 months ago by
saruman
▴ 10
0
votes
1
reply
446
views
naccess installation error
naccess
updated 4 months ago by
GenoMax
154k • written 4 months ago by
Angelo
• 0
1
vote
3
replies
1.4k
views
Download Isoform expression data from tcga
cancer
transcript
gene
isoform
updated 4 months ago by
t.fosk
• 0 • written 3.1 years ago by
nourmahfel
▴ 10
6
votes
11
replies
4.2k
views
Visualization of RNA-seq gene expression only one gene of interest between 2 conditions
RNA-seq
updated 4 months ago by
rajdeepboral00
▴ 70 • written 2.1 years ago by
Chris
▴ 360
0
votes
1
reply
475
views
feature_ref files in upstream analyses related to Perturb-seq
perturb-seq
updated 4 months ago by
GenoMax
154k • written 4 months ago by
2443422660
• 0
5
votes
7
replies
1.6k
views
Forum:
Theoretical Question: Is Sub-Angstrom Geometric Identity (RMSD < 0.1 Å) in Convergent Evolution Possible?
Kinesin
Biophysics
Biology
Molecular
Myosin
updated 4 months ago by
GenoMax
154k • written 4 months ago by
Alberto
▴ 10
0
votes
0
replies
870
views
News:
online course: An Introduction to Nanopore Direct RNA Sequencing (RNA004) - 27–30 October
DirectRNAseq
Nanopore
RNA004
RNAModifications
4 months ago by
Physalia-courses
★ 2.7k
1
vote
2
replies
688
views
Refflat file for Rattus norvegicus
file
RefFlat
Rattus
RNA-seq
norvegicus
updated 4 months ago by
GenoMax
154k • written 4 months ago by
AIMAR
▴ 70
3
votes
6
replies
1.6k
views
Forum:
LogFC on geometric means vs on arithmetic means. Presto vs Seurat
Presto
Seurat
logFC
general
questions
updated 4 months ago by
ATpoint
90k • written 4 months ago by
e.r.zakiev
▴ 260
1
vote
1
reply
713
views
Question about anova-like test using Limma
makeContrasts
limma
updated 4 months ago by
Gordon Smyth
★ 8.6k • written 18 months ago by
Daniel
▴ 10
5
votes
3
replies
817
views
asking for optimized bash scripting
analysis
updated 4 months ago by
Joe
22k • written 4 months ago by
QX
▴ 80
3
votes
5
replies
837
views
Differential expression genes
SEQ
DGE
RNA
updated 4 months ago by
GenoMax
154k • written 4 months ago by
m90
▴ 30
2
votes
3
replies
826
views
Discrepancy Between Fragment Size Distribution and MACS3-Predicted Fragment Length in ChIP-seq Dataset
macs3
4 months ago by
christoph.neu
▴ 10
4
votes
4
replies
787
views
Plotting of genes using tpm matrix
normalization
TPM
boxplot
updated 4 months ago by
i.sudbery
22k • written 4 months ago by
rajdeepboral00
▴ 70
3
votes
2
replies
614
views
A question about model matrix and contrast
makeContrasts
limma
4 months ago by
jkim
▴ 230
1
vote
1
reply
832
views
Understanding MAG completeness and contig composition in metagenomic bins
data
shotgun
updated 4 months ago by
andres.firrincieli
3.9k • written 4 months ago by
shevch2009
▴ 20
3
votes
4
replies
809
views
Understanding NCBI vs ENA data
ENA
NCBI
SRA
updated 4 months ago by
GenoMax
154k • written 4 months ago by
wes
▴ 90
0
votes
2
replies
1.1k
views
Job:
Assistance running population specific hapibd
ancestry
haplotype
IBD
updated 4 months ago by
cmdcolin
★ 4.4k • written 4 months ago by
CJ169
• 0
2
votes
1
reply
508
views
Empty result using enrichGO
clusterProfiler
updated 4 months ago by
GenoMax
154k • written 4 months ago by
Chris
▴ 360
2
votes
1
reply
6.3k
views
Convert ct file to dot bracket format
RNA
structure
updated 4 months ago by
zahraniasari.2023
• 0 • written 9.0 years ago by
abdullahrenk
▴ 30
0
votes
2
replies
2.1k
views
News:
Hands-On Workshop - Next-Generation Sequencing Data Analysis: A Practical Introduction (September 10-12, 2025 in Berlin, Germany)
Workshop
RNA-Seq
Illumina
VariantCalling
DNA-Seq
4 months ago by
ecSeq Bioinformatics
▴ 20
0
votes
0
replies
544
views
Is it possible to perform XP-EHH and iHS on targeted sequencing data without a .map file?
ngs
ihs
analysis
selection
sequencing
4 months ago by
slzr_
▴ 10
0
votes
0
replies
100
views
Job:
Scientist Bioinformatics at BASF | Nunhems (near Eindhoven , The Netherlands)
BASF
plants
4 months ago by
WS_jobs
• 0
122,232 results • Page
16 of 2445
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Comment: Data integration single cell using Harmony
Answer: Feature Counts vs Salmon quantification
Answer: Chip-seq analysis Diffbind
Question about variant calling method using pangenome-graph
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
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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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