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1,000 results • Page
3 of 20
Sort: Rank
Rank
Views
Votes
Replies
1
vote
5
replies
408
views
Haddock 2.4
Protein
Docking
updated 7 days ago by
dthorbur
★ 1.7k • written 9 days ago by
Preeti
• 0
1
vote
0
replies
110
views
ENVO Ontology to Annotate Plain Text
natural
language
NL
ontology
envo
8 days ago by
marie.harmel
▴ 10
0
votes
1
reply
158
views
Issues With Cram -> Fastq from GTEx v8 WGS
fastq
GTEx
cram
updated 9 days ago by
Pierre Lindenbaum
160k • written 9 days ago by
Vullnet
• 0
0
votes
0
replies
115
views
Evaluating MAST model fit using AIC
cell
single
MAST
scRNA
transcriptomics
9 days ago by
mhale
• 0
0
votes
0
replies
125
views
Limma contrasts - difference between single and multiple concurrent contrasts results
R
limma
updated 9 days ago by
Ram
43k • written 9 days ago by
shasabhi1
• 0
0
votes
0
replies
125
views
Genotype simulation
gwas
simulation
sim1000
updated 9 days ago by
Ram
43k • written 9 days ago by
Eliza
▴ 30
0
votes
0
replies
107
views
Remove SNPs based on MAF in Fst analysis
SNP
MAF
Fst
Popgenome
9 days ago by
kopelol
▴ 20
1
vote
1
reply
175
views
Troubleshooting a REGENIE sex-stratified GWAS
GWAS
REGENIE
updated 8 days ago by
Corentin
▴ 600 • written 9 days ago by
s.may-wilson
▴ 50
1
vote
3
replies
254
views
Average expression of a sample in single-cell data
single-cell
rna-seq
updated 9 days ago by
dsull
★ 5.6k • written 9 days ago by
newuser2024
• 0
0
votes
2
replies
233
views
nf-core/rnaseq, problem with ensembl reference
nfcore
nextflow
ensembl
rnaseq
9 days ago by
Filip
• 0
0
votes
2
replies
194
views
FASTA/FASTQ files of fetal Aneuploids
nipt
9 days ago by
lolbye_1
• 0
0
votes
0
replies
125
views
comparing sc-seq combination and bulk-sequencing
bulk-sequencing
sc-sequencing
10 days ago by
润达
• 0
0
votes
1
reply
172
views
BRIG coverage.graph issues
BRIG
sam
updated 10 days ago by
Pierre Lindenbaum
160k • written 10 days ago by
dlera.lozano
• 0
0
votes
0
replies
128
views
How to generate a comparative map using CGview?
genome
map
CGView
10 days ago by
marongiu.luigi
▴ 710
0
votes
0
replies
143
views
Advice on telling if two SNPs are on the same haplotype
ldpair
halplotype
co-occurance
gnomad
snp
10 days ago by
amy__
▴ 160
1
vote
2
replies
439
views
RNA-seq differential expression across multiple tissues, 2 trials, and 2 conditions
RNA-seq
DESeq
EdgeR
Batch-effect
DEGs
9 days ago by
BioinfGuru
★ 1.6k
1
vote
2
replies
238
views
Upset plot
upsetplot
9 days ago by
Chris
▴ 260
0
votes
1
reply
205
views
Are there any tools for mutational analysis of viruses?
virus
updated 9 days ago by
Ram
43k • written 11 days ago by
joey
▴ 10
0
votes
1
reply
253
views
I can't add VAF from population for all of my variants from VCF file
vaf
vcf
genomics
gnomad
allelicfrequency
updated 11 days ago by
Arton
• 0 • written 13 days ago by
Samuel
▴ 20
0
votes
0
replies
141
views
Analyzing differentially methylated regions from Nanopore long read data?
bioinformatics
Long
read
sequencing
methylation
11 days ago by
Arton
• 0
2
votes
2
replies
290
views
Seeking help with Tcga Target Gtex Expected Count Data
R
TCGA
gTEX
4 days ago by
bioinfo_enthusiast
• 0
1
vote
0
replies
147
views
How should I regenotype VCFs using vg?
vg
11 days ago by
Ricky
▴ 10
1
vote
2
replies
243
views
What GC content should I expect?
RNA-seq
GC-content
updated 11 days ago by
ATpoint
81k • written 11 days ago by
BioinfGuru
★ 1.6k
0
votes
0
replies
136
views
stat test
stattest
chi2
updated 11 days ago by
GenoMax
140k • written 11 days ago by
NLL
• 0
0
votes
0
replies
160
views
Anvio HMM source campbell_et_al
anvio
updated 9 days ago by
Ram
43k • written 12 days ago by
Hayler Edu
▴ 40
0
votes
1
reply
224
views
Issue with bigWigSummary utility of Kent/UCSC utilities
bigWig
UCSC
updated 12 days ago by
Pierre Lindenbaum
160k • written 12 days ago by
eeb74
• 0
0
votes
1
reply
221
views
deepTools computeMatrix output import into R for enrichment calculations
R
deeptools
computeMatrix
deepTools
updated 12 days ago by
Pierre Lindenbaum
160k • written 12 days ago by
eeb74
• 0
1
vote
1
reply
242
views
BAM to CRAM and BAM recover with smaller size
BAM
samtools
CRAM
updated 12 days ago by
GenoMax
140k • written 12 days ago by
geocarvalho
▴ 360
0
votes
0
replies
152
views
admixfrog for high-coverage data
introgression
12 days ago by
gubrins
▴ 290
0
votes
1
reply
235
views
updateR() error
R
update
updated 9 days ago by
dthorbur
★ 1.7k • written 12 days ago by
marco.barr
▴ 30
0
votes
0
replies
163
views
Haplotype Phasing from Yeast strains
yeast
haplotype
phasing
12 days ago by
Sven K
• 0
0
votes
0
replies
171
views
cufflinks- cuffquant issue
cufflinks
13 days ago by
soyeon
• 0
2
votes
2
replies
262
views
compare dimplot(single cell)
DEG
scRNAseq
12 days ago by
kayah
• 0
1
vote
1
reply
234
views
--busco_db and --busco_seed_species with RNA-seq
RNA-seq
Funannotate
busco
13 days ago by
sansan_96
▴ 50
0
votes
0
replies
162
views
Computational Package to engage Type 2 Diabetes Knowledge Portal (T2DKP)
workflow
Package
13 days ago by
Shicheng Guo
★ 9.4k
0
votes
1
reply
199
views
Pathway activity in Bulk-RNA-SEQ analysis
R
RNA-seq
transcriptomics
updated 13 days ago by
jared.andrews07
★ 16k • written 13 days ago by
PBC
▴ 10
1
vote
1
reply
207
views
lncRNA and ncPEPs identification
lncRNA
updated 13 days ago by
Yahel
• 0 • written 14 days ago by
atharvakarkare14
▴ 10
0
votes
0
replies
128
views
Music2 human to mouse deconvolution
deconvolution
liftover
music2
13 days ago by
rbronste
▴ 420
0
votes
2
replies
195
views
Weird Basecalled reads PHRED quality plot from pycoQC
pycoQC
nanopore
sequencing
13 days ago by
njornet
▴ 10
0
votes
0
replies
136
views
computeGCBias outputs
GC
bam
deepTools
GCbias
13 days ago by
pablo
▴ 300
0
votes
0
replies
115
views
Pindel zygosity determination
depth
vaf
pindel
Zygosity
13 days ago by
arya.sagittarius
▴ 10
1
vote
3
replies
231
views
How to predict the affinity between Protein and RNA?
Protein-RNAinteractions
prediction
deeplearning
updated 9 days ago by
dthorbur
★ 1.7k • written 13 days ago by
Alex
• 0
2
votes
2
replies
210
views
Seeking Help with Cell Ranger Multi Error in fixed-RNA-profiling
chromium
fixed-RNA-profiling
cellranger
updated 6 days ago by
naveau
• 0 • written 13 days ago by
lam
▴ 10
0
votes
3
replies
238
views
data background noise
noise
data
updated 7 days ago by
dthorbur
★ 1.7k • written 13 days ago by
marco.barr
▴ 30
4
votes
6
replies
290
views
Protein loops
protein
Loop
13 days ago by
Curious
▴ 10
0
votes
0
replies
509
views
Looking for guidance on Microbial Association Networks (MANs) Inference with samples from different metagenomics/metatranscriptomics studies
microbialassociationnetworks
metatranscriptomics
metagenomics
netowrkbiology
13 days ago by
sebasar1245
• 0
0
votes
1
reply
125
views
Bed file
bedfile
updated 13 days ago by
Pierre Lindenbaum
160k • written 13 days ago by
Jeet
• 0
0
votes
0
replies
85
views
How can validate hub genes or significant factors using area under the ROC curve (AUC)?
R
AUC
genes
hub
validation
13 days ago by
wyt1995
▴ 30
0
votes
0
replies
91
views
Toxinpred 3.0 tool
peptide
protein
toxin
toxicity
updated 13 days ago by
zx8754
11k • written 14 days ago by
Saurabh
• 0
0
votes
3
replies
225
views
Microarray pbrobe ID to gene ID problem
microarray
updated 12 days ago by
GenoMax
140k • written 14 days ago by
mnx0723
• 0
1,000 results • Page
3 of 20
Recent Votes
Comment: Hybrid assembly Pacbio- Nanopore
Answer: vg call is time consuming
Answer: FDR and Bonferroni
Answer: FDR and Bonferroni
Answer: Choosing an FC Threshold
Answer: Choosing an FC Threshold
Differential expression analysis with very high duplication rate
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to
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▴ 550
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chevivien
▴ 90
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Maxine
▴ 40
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Shicheng Guo
★ 9.4k
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cmdcolin
★ 3.7k
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amitpande74
▴ 20
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sarahmanderni
▴ 100
Recent Replies
Answer: calculate mismatch rate from VCF file
by
Pierre Lindenbaum
160k
> I want to calculate the mismatch rate on base-level, samtools stats in.bam | grep "error rate" | cut -f 2,3 error rate: 2.0…
Answer: Hybrid assembly Pacbio- Nanopore
by
colindaven
6.2k
If you have sufficient coverage of Pacbio HiFi reads - I think 30- 50X - then just use the Hifiasm https://github.com/chhylp123/hifiasm. It…
Answer: FindAllMarkers not working (Error (data layers are not joined. Please run JoinL
by
kayah
• 0
you should run JoinLayers() before FindAllMarkers()!!
Answer: Error occurs when migrate-n software performs "make mpis"
by
lingxue
• 0
Thank you very much. I will try to install it again according to your suggestion.
Comment: Only one read per run - Trying to use CellRangerv7
by
GenoMax
140k
https://www.ncbi.nlm.nih.gov/sra/?term=SRR16053948 Metadata indicates that this is: > Single-cell combinatorial-indexing RNA-sequencing (…
Comment: Paired layout, but one fastq file
by
GenoMax
140k
There is a BAM file available here: https://sra-pub-src-2.s3.amazonaws.com/SRR14667226/CTRL_possorted_genome_bam.bam.1 Please get that wit…
Comment: Only one read per run - Trying to use CellRangerv7
by
dsull
★ 5.6k
1. This is a comment, not an answer. Please don't post it as an answer. :) 2. This is sci-rna-seq, not 10x rna-seq. CellRanger would not …
Comment: Only one read per run - Trying to use CellRangerv7
by
Sky
▴ 10
Sorry for the delayed reply. I have included my code and the output from downloading the four files. Each dataset only resulted in one fast…
Answer: FDR and Bonferroni
by
joe
▴ 470
> Any idea why this is happening? For example, I got 1064 significant > probes from raw p-values, but only 18 from Bonferroni correction, a…
Comment: Paired layout, but one fastq file
by
Sky
▴ 10
I am also having a similar issue where there is only one fastq file but no bam file available so from my understanding I can't use bamtofas…
Comment: convert cds to seurat object
by
sooni
▴ 20
Yes, I tried with `as.Seurat`. But there is an error follwing: Error: `No data in provided assay - logcounts`. How can I solve this problem?
Comment: novel and know mir156 and mir172
by
gayachit
▴ 200
Do you have RNAseq or small RNAseq data?
Answer: Which fasta files are assembled transcripts IDBA_tran assembler ?
by
weidonglu
• 0
It should be transcript-20.fa,transcript-30.fa,transcript-40.fa,transcript-50.fa and transcript-60.fa. Then you have to merge these fasta-f…
Comment: Salmon Quantification in Alignment based-mode
by
GenoMax
140k
> /path/to//decoy.txt does not exist. Did you check to make sure the file is there? Also it is possible that by simply cutting the names a…
Comment: Why counting by diffbind and featurecounts differ?
by
Ankit
▴ 500
True in case of featurecounts and same I want to get via diffbind but it's not giving. I was trying to get the same results with diffbind.…
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