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122,232 results • Page
12 of 2445
Sort: Rank
Rank
Views
Votes
Replies
3
votes
4
replies
3.3k
views
Is a direct comparison of the number of up- and down-regulated genes meaningful?
RNA-seq
12 weeks ago by
biock
▴ 70
0
votes
0
replies
2.2k
views
How to convert demultiplexed Fastq to PRGs if Adaptor and Barcode information is not provided?
Pipesnake
Paleomix
UCE
Fastq
3 months ago by
s.pal2
• 0
2
votes
2
replies
4.0k
views
CUT&Tag signal normalization for generating bigWig files
CUT-TAG
bigwig
normalization
updated 3 months ago by
ATpoint
90k • written 3 months ago by
luminea
▴ 10
4
votes
2
replies
3.9k
views
How to account for solvent controls in DESeq2 when comparing follicular vs luteal phase?
RNAseq
replicates
DESeq2
EdgeR
3 months ago by
DareDevil
★ 4.5k
1
vote
2
replies
1.6k
views
How to detect divergent domains in AlphaFold models (CDD/InterProscan not working, PyMOL alignment)
alphafold
structural-analysis
domain-prediction
pymol
3 months ago by
LLG
• 0
0
votes
2
replies
1.4k
views
combat_met error: mu_hat_mat[, batches_ind[[jj]]] : subscript out of bounds
combat_met
epigenetics
updated 5 weeks ago by
borosmatej
• 0 • written 3 months ago by
ramiro.barrantes
▴ 60
0
votes
3
replies
2.0k
views
dual-RNA seq combined reference alignment and quantification.
exon
dualrnaseq
quantification
annotation
CDS
updated 3 months ago by
GenoMax
154k • written 3 months ago by
ki
• 0
3
votes
2
replies
5.1k
views
Illumina and ONT reads comparison
assembly
ont
genome
illumina
hybrid-assembly
updated 3 months ago by
colindaven
8.1k • written 3 months ago by
magatam
• 0
2
votes
2
replies
6.8k
views
Motif analysis
jaspar
Motif
meme
homer
analysis
updated 3 months ago by
lieven.sterck
16k • written 3 months ago by
sk_24
• 0
2
votes
2
replies
6.3k
views
Dragon Motif Builder download link
Motif
Dragon
Builder
Discovery
updated 3 months ago by
colindaven
8.1k • written 3 months ago by
Amara
• 0
0
votes
0
replies
4.9k
views
News:
online course: Host and manage your R projects with Git & GitHub
Git
GitHub
R-projects
3 months ago by
Transmitting Science communication
▴ 70
1
vote
4
replies
13k
views
Asking for unmapped genes in RNA sequencing via Galaxy
Galaxy
3 months ago by
Atefeh
• 0
2
votes
2
replies
12k
views
RNA-Seq - Strand-specific coverage for a paired library
Bowtie2
bam
RNA-Seq
alignment
updated 3 months ago by
swbarnes2
15k • written 3 months ago by
npb27
▴ 20
0
votes
4
replies
9.9k
views
RNA seq batch correction with technical replicates
batch-effect
RNA-seq
technical-replicates
3 months ago by
Li
• 0
1
vote
0
replies
7.9k
views
Forum:
A plot twist to DropletQC (scRNAseq Nuclear Fraction-based empty droplet filter)
scRNAseq
DropletQC
Velocyto
STARSolo
3 months ago by
hsuknowledge
▴ 10
0
votes
2
replies
14k
views
Problem creating STRUCTURE inputs with PLINK
vcf
population
plink
structure
genetics
updated 3 months ago by
katherinedrotos
• 0 • written 3 months ago by
Begonia_pavonina
▴ 210
1
vote
1
reply
11k
views
Forum:
Quick career guidance request - B.Tech final year
Biology
Bioinformatics
Masters
Computational
updated 3 months ago by
jared.andrews07
★ 19k • written 3 months ago by
Ayushman
• 0
0
votes
2
replies
11k
views
Confusion regarding genome coordinates in Genbank of TP53
isoform
tp53
genbank
3 months ago by
strontium
• 0
0
votes
0
replies
8.5k
views
News:
online course: Latent Class, Markov and Hidden Markov Models with Applications in R
MarkovModels
HiddenMarkavModels
LatentClass
R
3 months ago by
Physalia-courses
★ 2.7k
0
votes
0
replies
8.5k
views
News:
online course: Graphs with R: ggplot
data-visualization
ggplot2
R
updated 3 months ago by
GenoMax
154k • written 3 months ago by
Transmitting Science communication
▴ 70
0
votes
0
replies
8.5k
views
News:
Online course: Bioinformatic tools for transcriptomic data analyses
training
transcriptomics
RNA-seq
course
updated 3 months ago by
GenoMax
154k • written 3 months ago by
Transmitting Science communication
▴ 70
0
votes
0
replies
8.6k
views
diff_robust is TRUE but passed_ss is FALSE?
DAA
ancombc-2
3 months ago by
sumin
• 0
2
votes
2
replies
12k
views
Asking for source of the figure
Seeking
updated 3 months ago by
kalavattam
▴ 380 • written 3 months ago by
张炘荣
• 0
0
votes
3
replies
10k
views
bamCoverage with DNAse-seq shift
bigwig
dnase-seq
visualization
deeptools
updated 3 months ago by
vivekbhr
▴ 700 • written 3 months ago by
JMR
▴ 160
7
votes
3
replies
14k
views
GSEA vs GO enrichment
go
kegg
gsea
updated 3 months ago by
ATpoint
90k • written 3 months ago by
HarperReed
▴ 10
0
votes
0
replies
8.4k
views
Question about adaptive bootstrap and self-tuning MCMC as acceptable methodology for publication
Bootstrap
Phylogenetics
BEAST2
MEGA
MCMC
updated 3 months ago by
GenoMax
154k • written 3 months ago by
RCMC
• 0
1
vote
8
replies
13k
views
Fungal Genome Assembly: In a messed up situation
Illumina
Pacbio
Nanopore
assembly
HiFi
10 weeks ago by
SomeOne
▴ 260
6
votes
4
replies
9.4k
views
Tool:
Resource: A searchable library of 100,000+ scientific figures for visualization inspiration
visualization
updated 3 months ago by
shelkmike
★ 1.8k • written 3 months ago by
mert
▴ 40
0
votes
0
replies
9.2k
views
Job:
Assistant, Associate, or Full Project Scientist in Cell & Developmental Biology
Biology
UCSD
Cell
3 months ago by
UCSDBioSci
▴ 30
2
votes
1
reply
9.3k
views
vg gbwt missing sample and haplotype metadata when created using minigraph-cactus with vg construct
construct
gbwt
vg
minigraph-cactus
updated 3 months ago by
Jouni Sirén
▴ 800 • written 3 months ago by
cassiwatt
▴ 10
0
votes
1
reply
8.9k
views
trouble: getting gene names from chromosome location using intersect function in bedtools
intersect
chromosome
location
geneIDs
bedtools
updated 3 months ago by
GenoMax
154k • written 3 months ago by
Sky
▴ 10
1
vote
0
replies
9.2k
views
Job:
Resident Academic Full-Time Post in Bioinformatics (University of Malta)
bioinformatics
tenure
academia
3 months ago by
jp
▴ 130
2
votes
6
replies
10k
views
Human WGS analysis system requirements
Human
NGS
WGS
analysis
Server
updated 3 months ago by
GenoMax
154k • written 3 months ago by
genomics_buddy
• 0
5
votes
7
replies
19k
views
Help with Error in cellchat
cellchat
updated 3 months ago by
Arup Ghosh
3.5k • written 3 months ago by
Chris
▴ 360
1
vote
1
reply
10k
views
statistical analysis
scRNA
statistics
updated 3 months ago by
ATpoint
90k • written 3 months ago by
archanaverma433
▴ 10
0
votes
0
replies
9.8k
views
News:
online course: Introduction to Python Programming for Biologists
Python
BioPython
Coding
3 months ago by
Physalia-courses
★ 2.7k
1
vote
1
reply
10k
views
Can I use raw read counts from the GTEx data for cross-tissue comparison?
rnaseq
gtex
statistics
normalization
updated 3 months ago by
GenoMax
154k • written 3 months ago by
mukherjeeliana24
• 0
5
votes
2
replies
11k
views
Forum:
FDR correction can sometimes lie to you!
correction
statistics
FDR
testing
multiple
updated 3 months ago by
LChart
5.2k • written 3 months ago by
Chakri
▴ 50
4
votes
9
replies
13k
views
Running metaSPAdes with 71M paired-end reads: RAM and swap memory concerns
metaspades
assembly
metagenomics
3 months ago by
sumah.1si21bt017
▴ 30
0
votes
1
reply
11k
views
Mageck RuntimeWarning overflow encountered in multiply
crispr
python
mageckmle
mageck
linux
updated 3 months ago by
ATpoint
90k • written 3 months ago by
liz.b
• 0
1
vote
5
replies
11k
views
Phage whole genome sequence submission by Bankit
phage
submission
updated 3 months ago by
acvill
▴ 360 • written 3 months ago by
Parto
• 0
0
votes
1
reply
10k
views
Any alternative way to do ASAP (Assemble Species by Automatic Partitioning)?
delimitation
Species
test
updated 3 months ago by
Mark
★ 1.7k • written 3 months ago by
Chatchapon
• 0
0
votes
1
reply
11k
views
How to determine the relative abundance
Abundance
Relative
Genomics
Metagenomics
updated 3 months ago by
sumah.1si21bt017
▴ 30 • written 3.7 years ago by
serene.s
• 0
0
votes
0
replies
10k
views
Read- and Assembly-based taxonomic classification of mixed (Prokaryote + Eukaryote) metagenomes
Shotgun
Taxonomy
metagenomic
3 months ago by
sumah.1si21bt017
▴ 30
0
votes
2
replies
10k
views
Refcall in VCF
pass
vcf
phasing
pipeline
Refcall
updated 3 months ago by
prasundutta87
▴ 730 • written 3 months ago by
Mahdi&Christ
▴ 20
2
votes
8
replies
1.5k
views
Huge discrepancy between Pipseeker & DRAGEN for Pipseq data
analysis
sequencing
scRNA
seurat
updated 3 months ago by
1769mkc
★ 1.3k • written 3 months ago by
Arindam
▴ 10
7
votes
7
replies
11k
views
how to download gene annotation for NCBI GENE ID
R
entrez
NCBI
updated 3 months ago by
josev.die
▴ 70 • written 3 months ago by
Bioinfonext
▴ 480
0
votes
0
replies
10k
views
News:
Genome Assembly using long-reads PacBio data
HIC
LongReads
GenomeAssembly
PacBio
3 months ago by
Physalia-courses
★ 2.7k
2
votes
2
replies
10k
views
Taxonomic classification of shotgun metagenomic data of rhizospheric soil (bacteria + fungi)
Shotgun
classification
Taxonomic
metagenomics
3 months ago by
sumah.1si21bt017
▴ 30
0
votes
2
replies
9.8k
views
I encountered an error while using R Diffbind for data analysis
Diffbind
R
3 months ago by
Pallondyle
• 0
122,232 results • Page
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Recent Votes
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
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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