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712 results • Page
4 of 15
Sort: Rank
Rank
Views
Votes
Replies
0
votes
5
replies
303
views
bbmerge (bbmap) ~ error with insert size file output
bbtools
bbmerge
bbmap
updated 6 days ago by
GenoMax
142k • written 6 days ago by
chrisk
• 0
0
votes
1
reply
186
views
perseus software (version 1.5.5)
preseus
mass
spectrometry
data
updated 5 days ago by
DGTool
▴ 20 • written 6 days ago by
iqra
• 0
0
votes
0
replies
105
views
Why the shape of RCS is contradictory to the p value for nonlinearity.
RCS
ggplot2
ggplot
R
updated 7 days ago by
GenoMax
142k • written 7 days ago by
Dude
• 0
0
votes
0
replies
101
views
NEURON, Brian2, NEST, or PyNN
NEST
NEURON
PyNN
Brian2
7 days ago by
brunofelicianodeomena
• 0
1
vote
2
replies
220
views
Alphafold 3 pLDDT coloring scheme in chimerax?
ChimeraX
Alphaphold
Alphaphold3
updated 6 days ago by
colindaven
6.4k • written 7 days ago by
mbrav005
• 0
0
votes
1
reply
154
views
Polish a large genome with Pilon
Pilon
Pacbio
Polish
Illumina
6 days ago by
sansan_96
▴ 90
1
vote
2
replies
245
views
Doubt about the process of annotation, detection, identification and classification of transposable elements
annotation
TransposableElements
6 days ago by
MarcosCosta
• 0
2
votes
2
replies
214
views
Genome Visualization Tools
bacterial
genome
updated 7 days ago by
GenoMax
142k • written 7 days ago by
dlera.lozano
▴ 10
2
votes
3
replies
227
views
RSeQC : infer_experiment.py Error: Could not retrieve index file
RSeQC
RNA-Seq
updated 7 days ago by
Ram
44k • written 7 days ago by
Prawesh
• 0
1
vote
3
replies
304
views
Using ggplotly in R
ggplot
ggplotly
updated 6 days ago by
jared.andrews07
★ 17k • written 7 days ago by
jen
▴ 10
2
votes
2
replies
250
views
Why does assigning genes with biomart give me different values than using a transcripts_to_genes.txt file?
biomart
RNAseq
kallisto
5 days ago by
bioinfo
▴ 150
0
votes
3
replies
283
views
RNAseq RNA content
mRNA
Linux
rRNA
RNA-seq
RNA
updated 7 days ago by
noodle
▴ 590 • written 7 days ago by
doramora
▴ 10
0
votes
1
reply
154
views
Post-imputation QC for input into GWAS analyses
gwas
prs
updated 7 days ago by
LauferVA
4.2k • written 7 days ago by
graeme.thorn
▴ 100
0
votes
2
replies
211
views
Using Cutadapt to trim adapters from paired-end small RNA sequence data
trimming
adapters
cutadapt
sRNA-seq
smallRNA
6 days ago by
melissa.joubert
• 0
4
votes
1
reply
218
views
Extracting only 4-fold degenerate sites from gene sequences/alignments?
alignments
7 days ago by
J.
▴ 40
0
votes
0
replies
117
views
Is there a real ground truth for CNV data?
CNV
7 days ago by
jennyp0706
• 0
0
votes
3
replies
228
views
Biomart issue, why so few 3'utrs?
utr
biomart
updated 7 days ago by
GenoMax
142k • written 8 days ago by
RNAseqer
▴ 270
1
vote
1
reply
153
views
sci-RNA-seq
Seurat
sci-RNA-seq
updated 7 days ago by
Ram
44k • written 7 days ago by
kilcdincer
▴ 10
4
votes
4
replies
3.0k
views
CNVkit for somatic copy number detection
cnv
cnvkit
exome
WES
updated 7 days ago by
Anitha
• 0 • written 5.1 years ago by
stephaniem
• 0
1
vote
8
replies
486
views
Overlapping Ranges within Granges object
Genomicranges
IRanges
GRanges
updated 3 days ago by
Alex Reynolds
35k • written 8 days ago by
ntsopoul
▴ 60
0
votes
3
replies
219
views
How to access GWAVA software of data
GWAVA
updated 7 days ago by
GenoMax
142k • written 7 days ago by
nonaddldy
▴ 10
0
votes
2
replies
235
views
Inquiry about deseq2 transformation
RNA-seq
deseq2
6 days ago by
Chen
• 0
1
vote
1
reply
183
views
The total expressed genes in RNA-Seq data
RNA-SEQ
updated 7 days ago by
ATpoint
82k • written 8 days ago by
Pegasus
▴ 100
0
votes
1
reply
138
views
What is the bin size for Bamcompare?
chip-seq
deeptools
bamcompare
updated 7 days ago by
Ram
44k • written 7 days ago by
Emily
▴ 20
1
vote
3
replies
294
views
Is there any way to modify this pie chart ?
pie
ggplot
R
chart
updated 5 days ago by
GenoMax
142k • written 8 days ago by
ohtang7
▴ 40
0
votes
0
replies
98
views
In what situations is 'outer' typically used when using anndata.concat()?
concat
anndata
scanpy
7 days ago by
Spring
• 0
0
votes
2
replies
200
views
Is it necessary to do genotype quality filteration after snp calling with GATK
snp
filteration
genotype
quality
GATK
7 days ago by
IdaHao0921
• 0
0
votes
3
replies
362
views
Snakemake wrapper issue
fastqc
snakemake
updated 7 days ago by
Wei-Chen Pan
• 0 • written 10 weeks ago by
Matvii Mykhailichenko
• 0
2
votes
5
replies
292
views
What does the 'E%' represent in BUSCO results?
BUSCO
updated 7 days ago by
Philipp Bayer
8.5k • written 8 days ago by
林明德
• 0
0
votes
4
replies
2.3k
views
MGLTools does not work in windows 11
windows-11
Autodock
windows
MGLTools
updated 7 days ago by
Ram
44k • written 13 months ago by
mohyeddine.taleb
• 0
2
votes
4
replies
244
views
Help with IGV abbreviation
igv
updated 7 days ago by
Ram
44k • written 8 days ago by
GeneC
• 0
0
votes
1
reply
170
views
How to process Bulk WES data?
WES
WGS
updated 8 days ago by
GenoMax
142k • written 8 days ago by
wyuan37
• 0
0
votes
1
reply
165
views
Can diamond prepdb be used to make a taxonomically aware database?
blast
diamond
taxonomy
updated 8 days ago by
GenoMax
142k • written 8 days ago by
cedric.blais
• 0
0
votes
2
replies
444
views
News:
FINAL CALL: 8th Berlin Summer School in NGS Data Analysis - Only a few last places available
DNA-seq
variant-calling
RNA-seq
illumina
transcriptomics
8 days ago by
David Langenberger
11k
0
votes
1
reply
156
views
Empty .best and .sing2 Files After Running Demuxlet
Biosciences
Demuxlet
updated 8 days ago by
Ram
44k • written 8 days ago by
eking28
• 0
2
votes
5
replies
525
views
featureCounts output summary assigned value higher than uniquely mapped reads from HISAT2
RNA-seq
featureCounts
HISAT
updated 7 days ago by
Ram
44k • written 13 days ago by
Prawesh
• 0
1
vote
3
replies
459
views
Clarification regarding SAM flags "mate reverse strand" (flag 16/0x10) and "read reverse strand" (flag 32/0x20)
PE
BAM
SAM
flag
paired-end
8 days ago by
kalavattam
▴ 190
1
vote
2
replies
277
views
How to interpret infinite odds ratio?
statistics
7 days ago by
Lukas
• 0
4
votes
2
replies
201
views
Duplicated sequence samtools
bowtie2
samtools
updated 8 days ago by
GenoMax
142k • written 8 days ago by
Moinuddin
• 0
0
votes
0
replies
108
views
reference-free assembly error assessment tools
assembly
8 days ago by
lagartija
▴ 160
2
votes
4
replies
315
views
Benchmarking RNASeq Variant Calling Pipeline (Short Reads)
rna-seq
vcf
variant-calling
6 days ago by
Esraa
• 0
2
votes
0
replies
152
views
Herald:
The Biostar Herald for Monday, May 13, 2024
herald
8 days ago by
Biostar
2.8k
0
votes
1
reply
148
views
Splitting Seurat object by sample layers
seurat
updated 8 days ago by
Ram
44k • written 8 days ago by
kilcdincer
▴ 10
0
votes
4
replies
274
views
Galaxy StringTie error
stringtie
galaxy
7 days ago by
trkfs
• 0
0
votes
0
replies
107
views
dbNSFP sift scores integration
SIFT
VEP
dbNSFP
8 days ago by
atariw
▴ 10
0
votes
1
reply
165
views
Mouse ribosome sequences in fasta format
fasta
mm10
rRNA
updated 8 days ago by
GenoMax
142k • written 9 days ago by
octpus616
▴ 100
1
vote
4
replies
362
views
Getting the coding_sequence.fasta from the .gff file from the AUGUSTUS gene prediction.
augustus
annotation
assembly
genome
updated 7 days ago by
Juke34
8.6k • written 8 days ago by
Vijith
▴ 30
0
votes
1
reply
168
views
consensus sequence calling
consensus
updated 8 days ago by
bk11
★ 2.5k • written 8 days ago by
Ghada
• 0
0
votes
3
replies
205
views
Single-cell RNA-seq FindMarker and EnhancedVolcano Plot: most genes are low -log10P value
Seurat
single-cell
scRNA-seq
R
updated 8 days ago by
Ram
44k • written 8 days ago by
yau
• 0
3
votes
2
replies
291
views
imputation through beagle
panel
beagle
reference
imputation
7 days ago by
analyst
▴ 50
712 results • Page
4 of 15
Recent Votes
GO analysis: Different results EnrichGO vs ShinyGO
Comment: NGS forensics: how to know if data is fabricated
T2T-CHM13 "complete" human genome gff/gtf annotation file
Answer: T2T-CHM13 "complete" human genome gff/gtf annotation file
Comment: Problem in getting geo file through GEOQUERY
Answer: Problem in getting geo file through GEOQUERY
Comment: SnpEff and Snpsift
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Recent Awards •
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▴ 150
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▴ 120
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▴ 80
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Recent Replies
Comment: BiomartException: Query ERROR for existing dataset in BioMart
by
Luqman
• 0
Yes please see below: TraesCS2B02G372900 TraesCS2B02G375100 TraesCS2B02G374700 TraesCS2B02G382000
Comment: Functional enrichment analysis for unique gene IDs
by
Pegasus
▴ 100
Thanks for your answer, but as far as I know, gProfiler2 does not support bacteria. Could you please suggest alternative websites or softwa…
Comment: Create a new bed file with all pairwise combinations between two other bed files
by
J
▴ 10
Hi Alex, I'm sorry if I wasn't initially clear! The question hasn't changed; I had written in this post that I wanted all pairwise combinat…
Comment: BiomartException: Query ERROR for existing dataset in BioMart
by
Nyksubuz
▴ 20
Could share some examples for gene_ids?
Comment: Problem in getting geo file through GEOQUERY
by
anasjamshed
▴ 120
yeah but i am unable to find the link of GPL6244.soft.gz
Comment: Problem in getting geo file through GEOQUERY
by
ATpoint
82k
> Can you send me ftp link so I can download that soft file manually? Please find this link on your own by browsing the respective GEO ent…
Comment: Problem in getting geo file through GEOQUERY
by
anasjamshed
▴ 120
Thanks . I have downloaded all other files but just have problem in Error in downloadFile(myurl, destfile, mode = mode, quiet = TRUE)…
Answer: Problem in getting geo file through GEOQUERY
by
ATpoint
82k
Code runs for me and finishes in seconds. Maybe some poor internet connection on your end. Just set the timeout to 9999999 and retry. If th…
Comment: transanno liftvcf "Error: length of chromosome [chr] is not equal to length in c
by
ezz3
• 0
Thanks. I was wondering if that is the case but was having some issues understanding the transanno code which is written in rust and I don…
Answer: Multi-ploid data in ANGSD and NGSadmix
by
andersdetermig
▴ 20
1 ) I would not expect the haploid individuals to always cluster together but the model assumptions are violated. First of all the diploid…
Comment: transanno liftvcf "Error: length of chromosome [chr] is not equal to length in c
by
Pierre Lindenbaum
161k
"Are you using correct reference?" may be your reference is not using the same chrM. see https://www.biostars.org/p/199796/#199803
Comment: Fewer sites in vcf than in reference genome despite Emit_All_Sites argument
by
shpak.max
▴ 50
Could you please elaborate on what you mean by passing -L or -V, i.e. what would the appropriate argument be for -L with UnifiedGenotyper f…
Answer: Add stats to the plot
by
Ghada
• 0
It works. I have added this code my_comparisons=list(c("HRSV", "HRSV_RBV")) plot + stat_compare_means(method = "wilcox.test",…
Comment: Fewer sites in vcf than in reference genome despite Emit_All_Sites argument
by
LChart
3.9k
I believe UnifiedGenotyper is a locus walker that sets `emitEmptySites() = False`. As such you will not see entries for positions that have…
Comment: Problem in getting geo file through GEOQUERY
by
anasjamshed
▴ 120
Basically this is my code: if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager") # # pkgs <- rowna…
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