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121,924 results • Page
82 of 2439
Sort: Rank
Rank
Views
Votes
Replies
5
votes
2
replies
675
views
Query regarding the ST visulization
Visualization
Circos
Sequence
13 months ago by
Jaykumar
▴ 50
0
votes
0
replies
382
views
LD block
linkage-disequilibrium
LD-block
LD
updated 13 months ago by
Ram
45k • written 13 months ago by
UPO
• 0
2
votes
8
replies
1.4k
views
using parallel on samtools view
samtools
parallel
updated 13 months ago by
michael.ante
★ 4.0k • written 13 months ago by
chictu
▴ 10
0
votes
0
replies
515
views
How to choose the minGSsize and maxGSsize parameters in clusterProfilers GSEA
R
clusterProfiler
GSEA
13 months ago by
edoardofilippi1998
• 0
0
votes
0
replies
286
views
qPRO-Seq analysis
qpro
13 months ago by
daffodil
▴ 10
0
votes
0
replies
483
views
reference-point setting from computeMatrix
ATACseq
13 months ago by
QX
▴ 80
0
votes
2
replies
805
views
Issues with Minimap2 and ONT (Nanopore)
minimap
nanopore
13 months ago by
pixie@bioinfo
★ 1.5k
0
votes
0
replies
377
views
which distance used for kmeans in deeptools plotHeatmap
atac
deeptools
13 months ago by
QX
▴ 80
1
vote
2
replies
752
views
How to Detect Amino Acid Changes from a GATK VCF File and Reference Genome Using Code?
tabix
codons
vcf
variants
gatk
updated 13 months ago by
Pierre Lindenbaum
166k • written 13 months ago by
DareDevil
★ 4.4k
1
vote
6
replies
1.6k
views
Geometric optimization following amino acid substitution in PyMol
geometric-optimization
pymol
13 months ago by
Hansen_869
▴ 80
0
votes
0
replies
333
views
Function for Cancer Multi-omic Integration Function in Database
multiomic
database
oncogene
integration
cancer
13 months ago by
minsu1794
• 0
0
votes
0
replies
354
views
StringTie Parameters for Yeast
gffcompare
nanopore
stringtie
rnaseq
13 months ago by
kyusikkim
▴ 20
349
votes
94
replies
267k
views
59 follow
Tools To Calculate Average Coverage For A Bam File?
coverage
bam
sequencing
updated 13 months ago by
GenoMax
153k • written 14.7 years ago by
Biomed
5.0k
2
votes
4
replies
1.4k
views
Reliable method to detect 10x single-cell chemistry?
10x
13 months ago by
morovatunc
▴ 560
0
votes
1
reply
466
views
Multiple annotation in my table counts
RNA-seq
RNA
microRNA
miRNAs
13 months ago by
omicon
▴ 40
5
votes
8
replies
2.0k
views
Downloading RNAseq datasets from GEO into R
geodatabase
transcriptomic
3 months ago by
Alana
• 0
0
votes
0
replies
309
views
I can not see the intron region aligned to ref in IGV from ONT direct RNA sequencing
Nanopore
13 months ago by
Zhen
• 0
0
votes
3
replies
704
views
Console BLAST search in WGS/TSA databases
blast
updated 13 months ago by
Ram
45k • written 13 months ago by
NK
• 0
2
votes
1
reply
1.4k
views
Error at phase 4 when running GeMoMa (homology-based annotation)
Homology
GeMoMa
Annotation
Genome
updated 13 months ago by
asd63zhengzeyu
▴ 10 • written 2.5 years ago by
bbscience
▴ 10
15
votes
4
replies
1.7k
views
How to perform reciprocal best hit (RBH) when there are multiple versions of a protein sequence
reciprocal.best.hit
protein
sequence
RBH
blast
updated 13 months ago by
LChart
5.1k • written 13 months ago by
Chilly
★ 1.3k
2
votes
2
replies
966
views
No boxplots on my FastQC report
FastQC
updated 13 months ago by
ATpoint
89k • written 13 months ago by
sara.vandenbosch
• 0
0
votes
0
replies
361
views
GDCRNATools: error in the gdcRNAMerge function
R
GDCRNATools
studioR
gdcRNAMerge
13 months ago by
Azra
▴ 10
0
votes
0
replies
661
views
Job:
Available Bioinformatics PhD Position at the Med Uni Graz, Austria
Data-Analysis
PhD
Transcriptomics
Medicine
updated 13 months ago by
Ram
45k • written 13 months ago by
Julia Feichtinger
• 0
1
vote
1
reply
729
views
merge replicate for bigWig files from macs2 peak calling
ATAC-seq
updated 13 months ago by
ATpoint
89k • written 13 months ago by
QX
▴ 80
0
votes
0
replies
332
views
vg autoindex (Variant with '.' among multiple alts being skipped)
vg
13 months ago by
yixing
• 0
1
vote
2
replies
645
views
the reference used in Cuffcompare(GENCODE, RefSeq)
GENCODE
RNA-seq
Cuffcompare
RefSeq
13 months ago by
ZZOYEA
▴ 20
0
votes
2
replies
574
views
BWA-MEM PARAMETER TO DETECT MUTATION
BWA
bwa-mem
bwa
updated 13 months ago by
Pierre Lindenbaum
166k • written 13 months ago by
Bhawna
• 0
0
votes
2
replies
588
views
Source code of metaCV
metagenomics
metaCV
13 months ago by
yeah
• 0
0
votes
2
replies
971
views
not centered volcano plot, Seurat
R
volcano
SingleCell
Seurat
13 months ago by
sooni
▴ 20
0
votes
1
reply
503
views
Blast BRAKER output
braker
blast
updated 13 months ago by
GenoMax
153k • written 13 months ago by
Tom Brady
• 0
3
votes
1
reply
672
views
How to identify fastq source - Illumina or ONT?
ont
illumina
fastq
updated 13 months ago by
GenoMax
153k • written 13 months ago by
ChillarAnand
▴ 80
4
votes
6
replies
1.8k
views
advice for visualizing a graph genome constructed by "vg construct"
vg
13 months ago by
Jong
▴ 10
2
votes
2
replies
686
views
NCBIWWW.qblast returning empty XML
NCBIWWW
qblast
BLAST
BioPython
Bio.Blast
13 months ago by
brandon
▴ 10
0
votes
0
replies
482
views
News:
Course - RNA-Seq Analyses in Non-Model Organisms (online)
Bioconductor
Non-Model-Organisms
Nanopore
Pacbio
RNA-seq
updated 13 months ago by
Ram
45k • written 13 months ago by
Physalia-courses
★ 2.6k
0
votes
11
replies
1.6k
views
Why do I have * in my FASTA? g2gtools diploid
g2gtools
RNAseq
FASTA
genome
transcriptome
13 months ago by
jon.klonowski
▴ 210
0
votes
0
replies
321
views
Automatically annotate gene loci
reference-genome
scRNA-seq
gene-annotation
updated 13 months ago by
Ram
45k • written 13 months ago by
rtrende
▴ 80
2
votes
4
replies
1.3k
views
One SRR (one fastq) file for pair-end layout
SRR
paired-end
SRA
13 months ago by
Vojtěch
▴ 10
7
votes
6
replies
3.1k
views
0 Features for COVID-19 ExpressionSet through GEOQuery
RNA-Seq
R
GEOquery
updated 13 months ago by
Sean Davis
27k • written 5.2 years ago by
arjuncsubra
▴ 20
3
votes
5
replies
1.8k
views
Tool:
ggalign: alternative to ComplexHeatmap, a ggplot2 extension for complex heatmap and marginal plots.
ggplot2
heatmap
9 months ago by
Yun
▴ 70
0
votes
1
reply
517
views
Genes of Interest in a Multi-Tissue Analysis
VST
DGE
DESeq2
updated 10 months ago by
allingt
▴ 40 • written 13 months ago by
Gabriel
• 0
0
votes
1
reply
644
views
Generate PSSM using HMMER
HMMER
updated 13 months ago by
Mensur Dlakic
★ 30k • written 13 months ago by
jet
• 0
0
votes
2
replies
909
views
Inlfated QQ plot GWAS
GWAS
updated 13 months ago by
LauferVA
4.8k • written 13 months ago by
Pedro
• 0
1
vote
10
replies
8.8k
views
6 follow
vcftools Error: Require Genotypes in VCF file in order to output as 0/1/2 matrix.
vcftools
vcf
updated 13 months ago by
Ram
45k • written 7.0 years ago by
mayara.salvian
▴ 10
1
vote
18
replies
2.6k
views
Submitting a job in parallel on slurm
bam
slurm
shell
parallel
updated 13 months ago by
rfran010
★ 1.6k • written 13 months ago by
Arthur
▴ 10
1
vote
1
reply
507
views
WGS variant filtering for exome
wes
snp
strelka
freebayes
wgs
updated 13 months ago by
Pierre Lindenbaum
166k • written 13 months ago by
isMM
• 0
0
votes
3
replies
708
views
Change of cell proportions or differential expression?
deconvolution
differential-expression
13 months ago by
Aspire
▴ 390
1
vote
7
replies
1.7k
views
I encountered a problem while using Mageck to analysis CRISPR screen data
Mageck
CRISPR-screen
updated 10 months ago by
GenoMax
153k • written 13 months ago by
Pallondyle
• 0
5
votes
9
replies
2.0k
views
How do I find allele frequencies from GATK output?
allele-frequency
GATK
muller-plot
updated 12 months ago by
2nelly
▴ 350 • written 13 months ago by
mgranada3
▴ 60
2
votes
2
replies
1.2k
views
What are the WES-specific settings when running GATK's variant recalibration step?
WES
GATK
recalibration
exome
updated 13 months ago by
GenoMax
153k • written 2.4 years ago by
Joel Wallenius
▴ 220
1
vote
3
replies
5.5k
views
Remove column from Seurat metadata
single-cell
transcriptomics
cell-type-annotation
RNAseq
updated 13 months ago by
ev97
▴ 40 • written 2.4 years ago by
gorizwango
▴ 30
121,924 results • Page
82 of 2439
Recent Votes
Comment: SNP calling with bacterial assembled genome
Answer: Understanding the relationship between hhr and a3m output of HHblits
C: Annotation for gene-level analysis after stringtie
C: how to find novel genes and transcripts in gffcompare?
Answer: Samtools fails with libcrypto error
C: Why run FeatureCounts after Stringtie? (Galaxy recommends!)
Comment: Chimera removal dilemma in 16S V3–V4: necessary when using Kraken2/Bracken?
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Recent Replies
Comment: SNP calling with bacterial assembled genome
by
GenoMax
153k
> After I find some differences between the assembly and the reference, how can I decide confident variants without the depth? Don't think…
Comment: Orthofinder Not Mapping to Any Orthogroups
by
Philipp Bayer
8.9k
Did you check whether your species' fasta file is named correctly? From memory Orthofinder will pull in files ending in .fa and .fasta in t…
Comment: SNP calling with bacterial assembled genome
by
yesquokkan
• 0
Thank you for your kind answer. May I ask some following questions. However, I only have full access to assembled genomes, and some to ra…
Answer: Understanding the relationship between hhr and a3m output of HHblits
by
Andrew
• 0
Ok after reviewing the HHBlits source code I realize the issue is that the hhr file and the a3m file contain apples and oranges, and it doe…
Comment: Orthofinder Not Mapping to Any Orthogroups
by
saamhasan55
▴ 10
I checked the file and it's definitely proteins. I had previously run BUSCO on protein mode on the same file and got >90% completeness. I r…
Comment: Orthofinder Not Mapping to Any Orthogroups
by
saamhasan55
▴ 10
I ran BUSCO on the predicted proteome in protein mode and got >91% completeness. I also removed multiple isoforms from the same gene.
Comment: Help with Model
by
Stele
• 0
Hey, thanks for the reply! I think I didn't make the question very understandable. I do know how to code for this, the wall I have hit is *…
Comment: Orthofinder Not Mapping to Any Orthogroups
by
Mensur Dlakic
★ 30k
Not enough detail to make a definitive recommendation. Since this should not happen, an educated guess is that you are doing something wron…
Comment: Orthofinder Not Mapping to Any Orthogroups
by
Michael
56k
A reason may be that your gene prediction is off. Did you run BUSCO on your predicted proteome? If the gene prediction is ok, then you shou…
Comment: Genome Assembly QC from BAM files
by
GenoMax
153k
> Can you comment on these, If they look good ? More importantly how do these assemblies compare (contiguous/number of chromosomes/size) t…
Comment: TOPMed Imputation - More than 10000 allele switches
by
Qianshu
• 0
Hi, I have the same error with you, have you sorted it out yet? If you have, could you please share some? Thank you!
Comment: Genome Assembly QC from BAM files
by
colindaven
7.9k
yes they look excellent
Comment: Genome Assembly QC from BAM files
by
SomeOne
▴ 240
hello @colindaven I ran the INSPECTOR tool you mentioned on the genome assemblies. Below are stats for one of my sample (othere were simi…
Comment: Chimera removal dilemma in 16S V3–V4: necessary when using Kraken2/Bracken?
by
Christopher
▴ 10
You are right. I initially decided to keep Cutadapt because I feel more confident using it for primer removal, and it is the tool most comm…
Answer: Help with Model
by
i.sudbery
22k
I'm not quite sure what you are asking. Stochastic reaction networks like this can be coded using the Gillespie algorithm. Genes being …
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