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121,919 results • Page
66 of 2439
Sort: Rank
Rank
Views
Votes
Replies
1
vote
2
replies
763
views
Using scRNA-seq to draw concrete evidence about transitional cluster
ScRNA-Seq
11 months ago by
odi
▴ 10
1
vote
3
replies
795
views
MAKER has many FAILED
genome
softmask
MAKER
annotation
updated 11 months ago by
GenoMax
153k • written 11 months ago by
san96
▴ 190
2
votes
1
reply
576
views
Where can I locate cancer genome?
cancer
genome
whole
exome
updated 11 months ago by
GenoMax
153k • written 11 months ago by
Chloe
• 0
0
votes
0
replies
436
views
DiffBind Profile Plot Error
DiffBind
ATAC-seq
updated 11 months ago by
GenoMax
153k • written 11 months ago by
B.N.
▴ 10
3
votes
0
replies
443
views
Tool:
I Built a Simple Website to Help Students Find Research Labs
students
career
research
academia
web-application
11 months ago by
bitsofadventures
▴ 40
0
votes
0
replies
359
views
Bacterial annotators: chromosomes, plasmids, integrons, prophages ?(and other mobile element)
INTEGRONS
CHROMOSOMES
PLASMIDS
updated 11 months ago by
GenoMax
153k • written 11 months ago by
psuazosoto
• 0
9
votes
8
replies
5.5k
views
7 follow
Tool:
New ultraperformant version of SICER/epic: epic2
ChIP-Seq
updated 11 months ago by
GenoMax
153k • written 6.8 years ago by
endrebak852
▴ 110
0
votes
2
replies
967
views
bcftools/vt split multiallelics - split GT along with splitting multi-allelics
multiallelics
decompose
bcftools
vcf
vt
11 months ago by
Ram
45k
1
vote
4
replies
1.0k
views
VCF filter by read depth
VCF
updated 11 months ago by
Ram
45k • written 11 months ago by
shu8
• 0
0
votes
0
replies
487
views
Volcano Plot and DGE analysis
DGE
Volcano-Plot
scRNA-seq
updated 11 months ago by
Ram
45k • written 11 months ago by
JuanJo
• 0
1
vote
1
reply
517
views
only ~12% of assigned reads on featurecount
RNA-seq
updated 11 months ago by
DGTool
▴ 290 • written 11 months ago by
diogo.moraes
▴ 20
1
vote
1
reply
789
views
Where can I find a database of healthy genotypes as well as a database of genetic diseases to link these data?
SNPid
database
genotypes
updated 11 months ago by
Jeremy Leipzig
23k • written 11 months ago by
Crypto
▴ 10
2
votes
3
replies
3.3k
views
Weird behaviour - WGCNA hub analysis results in Cytoscape through CytoHubba plugin change every time I run it!
rnaseq
wgcna
cytoscape
hubs
cytohubba
updated 11 months ago by
xanderpico
▴ 580 • written 3.2 years ago by
Raito92
▴ 100
2
votes
5
replies
2.4k
views
UMItools dedup deduplication taking too much time + RAM
UMI-tools
bam
RNA-seq
updated 11 months ago by
i.sudbery
22k • written 3.7 years ago by
lluc.cabus
▴ 30
0
votes
0
replies
386
views
iMAT (integrative metabolic análisis tool) - MATLAB
iMAT
MATLAB
updated 11 months ago by
Ram
45k • written 11 months ago by
debocolman
• 0
2
votes
1
reply
644
views
Does vg provides an api?
cpp
vg
api
updated 11 months ago by
Jordan M Eizenga
▴ 760 • written 11 months ago by
guntul
▴ 40
1
vote
2
replies
605
views
Aligning a genome with a size of about 300,000.
Alignment
snapgen
genome
updated 11 months ago by
GenoMax
153k • written 11 months ago by
trezini
• 0
0
votes
1
reply
562
views
Similar tools to visualize pileup of long-read alignments to a STR locus
str
long-reads
pileups
nanopore
updated 7 months ago by
WouterDeCoster
48k • written 11 months ago by
Antonio
• 0
2
votes
1
reply
514
views
What is trait discoverability?
snp
phenotype
gene
trait
updated 11 months ago by
GenoMax
153k • written 11 months ago by
_quantum_girl_
▴ 60
0
votes
0
replies
463
views
Salmon transcript-level to gene-level quantification
R
Salmon
RNA-Seq
11 months ago by
Mitmischer
• 0
1
vote
1
reply
793
views
SNP Density plot with custom genome using karyoploteR
NGS
SNP
R
updated 11 months ago by
zx8754
12k • written 11 months ago by
adarsh
▴ 60
2
votes
2
replies
900
views
Need help with AUGUSTUS and AGAT for gene prediction and feature extraction, respectively.
augustus
AGAT
annotation
genome
agat
updated 11 months ago by
Juke34
9.3k • written 11 months ago by
Vijith
▴ 100
0
votes
3
replies
750
views
Detection of unknown sub cells in a population of cells using DEGs from scRNAseq data
scRNAseq
updated 11 months ago by
ATpoint
89k • written 11 months ago by
ashkan
▴ 160
3
votes
5
replies
1.6k
views
Decision on Upregulated/Downregulated Genes in DE list- P-value and Log fold change
Pvalue
logfoldchange
updated 11 months ago by
Mensur Dlakic
★ 30k • written 11 months ago by
odi
▴ 10
7
votes
24
replies
3.8k
views
TCGA Biolinks code issue
normalization
TCGAbiolinks
updated 11 months ago by
mazegriff
▴ 100 • written 11 months ago by
nuorain
▴ 40
0
votes
3
replies
1.5k
views
Error in pheatmap 'Error in hclust(d, method = method) : must have n >= 2 objects to cluster' for selected genes
pheatmap
updated 11 months ago by
Mensur Dlakic
★ 30k • written 11 months ago by
aackermann287
• 0
0
votes
5
replies
917
views
MarkDuplicatesSpark throwing disk quota errors
GATK
11 months ago by
ChumBucket2024
▴ 10
0
votes
0
replies
385
views
Linear Mixed-effects Modelling for Mouse Tumor Growth Data
lmerTest
modelling
mixed-effects
lme4
11 months ago by
BioNovice247
▴ 20
3
votes
4
replies
1.4k
views
Cannot process a custom VCF file using bcftools
R
bcftools
VCF
updated 11 months ago by
Pierre Lindenbaum
166k • written 11 months ago by
Qiong
▴ 10
0
votes
1
reply
477
views
filter genes for differential gene expression
RNA-seq
differential-gene-expression
updated 11 months ago by
Ram
45k • written 11 months ago by
bleven
• 0
0
votes
0
replies
479
views
Best Practices for Tumor-Only WES Data Analysis: Seeking Feedback on Variant Calling Pipeline
GATK
Mutect
WES
Cancer
11 months ago by
George
▴ 20
0
votes
0
replies
418
views
CODEX/Phenocycler -> QuPath -> Seurat pipeline basic help needed
QuPath
CODEX
Seurat
Phenocycler
11 months ago by
yura.grabovska
▴ 820
0
votes
1
reply
594
views
How to compare SNPs in different population
SNPs
genome
VCF
updated 11 months ago by
dthorbur
★ 3.1k • written 11 months ago by
Elisa
• 0
0
votes
0
replies
418
views
News:
RADseq data analysis using Stacks (online course)
RADseq
Phylogenomics
Population-Genomics
Stacks
updated 11 months ago by
Ram
45k • written 11 months ago by
Physalia-courses
★ 2.6k
0
votes
2
replies
756
views
KEGG MAPPER Reconstruct
KEGG
MAPPER
updated 11 months ago by
andres.firrincieli
3.9k • written 11 months ago by
Julián
• 0
6
votes
6
replies
1.1k
views
RNA-Seq multiple lane
bam
RNA-seq
transcriptomics
11 months ago by
MaxMin
▴ 10
1
vote
4
replies
934
views
Problems with Megahit wanting to overwrite the Input for the output directory
metagenomics
megahit
slurm
updated 11 months ago by
Pierre Lindenbaum
166k • written 11 months ago by
Jan
• 0
4
votes
6
replies
1.5k
views
Pheatmap cluster by columns not working
R
pheatmap
11 months ago by
Nona
▴ 90
3
votes
5
replies
1.8k
views
error when installing gistic2 using conda
conda
gistic2
updated 11 months ago by
bioruffo
▴ 40 • written 21 months ago by
luckyday1661
▴ 10
2
votes
2
replies
769
views
LOC gene on opposite DNA-strand causes lower log2FC value?
genes
LOC
bulk-RNA-seq
updated 11 months ago by
colindaven
7.9k • written 11 months ago by
Biomed-jeh
▴ 70
1
vote
0
replies
323
views
How to determine the origin of replication of plasmid
plasmid
11 months ago by
aldreaspect2008
▴ 10
3
votes
4
replies
1.4k
views
genome assembly records not present in assembly_summary.txt
ncbi
bacteria
assembly
written 17 months ago by
sapuizait
▴ 10
0
votes
3
replies
756
views
The best tool for Scaffolding
contigs
scaffold
assembly
spades
updated 11 months ago by
dthorbur
★ 3.1k • written 14 months ago by
davidmaimoun
▴ 50
0
votes
2
replies
786
views
Assembly Question
Question
Flye
Contig
Assembly
written 13 months ago by
parb2182
▴ 10
1
vote
5
replies
1.3k
views
Best Way to Assemble DNA Sequencing Data
DNA-sequencing
assembly
written 13 months ago by
echolley
▴ 20
0
votes
3
replies
919
views
SPAdes for specific strain assembly from stool sequenced data
assembly
SPAdes
fastq
updated 11 months ago by
dthorbur
★ 3.1k • written 12 months ago by
chemokine-1
▴ 10
0
votes
3
replies
1.1k
views
Cross-strand correlation for paired-end ChIP-seq data
paired-end
ChIP-seq
RelCC
single-end
updated 11 months ago by
LChart
5.1k • written 11 months ago by
alison.ludzki
• 0
1
vote
3
replies
734
views
Error with filterbytile.sh from BBMap suite
quality
control
Reads
11 months ago by
SHIRUI
▴ 10
0
votes
2
replies
792
views
RMSD value greater than backbone
docking
RMSD
MD
Molecular
simulation
updated 11 months ago by
aUser
▴ 80 • written 11 months ago by
Tiara
• 0
2
votes
0
replies
601
views
Tool:
Neurosnap Tools: New Fully Open Source Package For Molecular Biology
msa
protein
docking
ligand
pdb
11 months ago by
keaun
▴ 40
121,919 results • Page
66 of 2439
Recent Votes
A: Binning Over Genes And Calculating The Coverage [Bedops/Bedmap]
Answer: [vg giraffe] Unable to add read group to BAM file
Comment: [vg giraffe] Unable to add read group to BAM file
Answer: [vg giraffe] Unable to add read group to BAM file
Answer: vcf multisample
Answer: vcf multisample
Answer: vcf multisample
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Recent Awards •
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Denis
▴ 320
Teacher
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Pierre Lindenbaum
166k
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▴ 10
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Recent Replies
Comment: Help with species tree with orthofinder, iqtree and branch labeling
by
GenoMax
153k
> I don’t have clear species labels in my headers, only sequence IDs. I have not used iqtree, so this is only a thought ... should it be y…
Comment: Help with species tree with orthofinder, iqtree and branch labeling
by
san96
▴ 190
Thank you so much.
Comment: [vg giraffe] Unable to add read group to BAM file
by
saruman
▴ 10
Yes, it seems so. Thank you.
Comment: cellranger mkref fail/error
by
GenoMax
153k
> The thing is that I do not have a genome for these organisms. That is not what `cellranger mkref` is expecting. You could consider alt…
Comment: cellranger mkref fail/error
by
tatsispolychronis
• 0
The thing is that I do not have a genome for these organisms. i made a transcriptome using TRinity and this is what I am feeding it. I do n…
Comment: Genome Assembly QC from BAM files
by
SomeOne
▴ 240
Hi, I am not sure if i can call them good assemblies. Although based on QUAST and BUSCO stats, everything looks too good but somehow i hav…
Comment: cellranger mkref fail/error
by
GenoMax
153k
You need to provide the genome reference for the `--fasta` option as noted in https://www.10xgenomics.com/support/software/cell-ranger/late…
Answer: Methods to analyse structural similarity: co-evolution vs convergence
by
Joe
22k
Without historical data (ancient DNA) there's no way to ever really know this for certain. The best we can do is make inferences based on t…
Answer: vcf multisample
by
Pierre Lindenbaum
166k
eg : https://ega-archive.org/datasets/EGAD50000001683 > Merged VCF file from sporadic Meniere disease cohort (found using https://dat…
Comment: Genome Assembly QC from BAM files
by
GenoMax
153k
Since this saga has been on going for a long time, it will be helpful to add a comment as to how you finally got to this point of what seem…
Comment: Methods to analyse structural similarity: co-evolution vs convergence
by
dthorbur
★ 3.1k
A few comments. 1. Coevolution of a trait between 2 organisms can end up with a convergent structure with another organism. It's not e…
Comment: Genome Assembly QC from BAM files
by
SomeOne
▴ 240
Thank you. Based on the description these two look really what i wanted to see.
Comment: miRNA low mapping ratings
by
i.sudbery
22k
Also, can you just clarify that the output above is from cutadapt or form miRDeep2?
Comment: miRNA low mapping ratings
by
i.sudbery
22k
What happens if you remove the `--minimum-length` requirement to cutadapt, and then run fastqc on the result - what size disitribution do y…
Answer: Genome Assembly QC from BAM files
by
colindaven
7.9k
You can have a look at the tools in the PAQman pipeline https://github.com/SAMtoBAM/PAQman, and maybe also Inspector https://github.com/Mag…
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