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116,970 results • Page
2 of 2340
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Votes
Replies
2
votes
3
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202
views
RSeQC : infer_experiment.py Error: Could not retrieve index file
RSeQC
RNA-Seq
updated 1 day ago by
Ram
43k • written 1 day ago by
Prawesh
• 0
1
vote
3
replies
264
views
Using ggplotly in R
ggplot
ggplotly
updated 17 hours ago by
jared.andrews07
★ 16k • written 1 day ago by
jen
▴ 10
0
votes
1
reply
158
views
Why does assigning genes with biomart give me different values than using a transcripts_to_genes.txt file?
biomart
RNAseq
kallisto
updated 1 day ago by
GenoMax
142k • written 1 day ago by
bioinfo
▴ 150
0
votes
3
replies
248
views
RNAseq RNA content
mRNA
Linux
rRNA
RNA-seq
RNA
updated 1 day ago by
noodle
▴ 580 • written 1 day ago by
doramora
▴ 10
0
votes
1
reply
142
views
Post-imputation QC for input into GWAS analyses
gwas
prs
updated 1 day ago by
LauferVA
4.2k • written 1 day ago by
graeme.thorn
▴ 100
0
votes
2
replies
174
views
Using Cutadapt to trim adapters from paired-end small RNA sequence data
trimming
adapters
cutadapt
sRNA-seq
smallRNA
1 day ago by
melissa.joubert
• 0
4
votes
1
reply
195
views
Extracting only 4-fold degenerate sites from gene sequences/alignments?
alignments
1 day ago by
J.
▴ 40
0
votes
0
replies
104
views
Is there a real ground truth for CNV data?
CNV
1 day ago by
jennyp0706
• 0
0
votes
3
replies
204
views
Biomart issue, why so few 3'utrs?
utr
biomart
updated 1 day ago by
GenoMax
142k • written 2 days ago by
RNAseqer
▴ 270
1
vote
1
reply
137
views
sci-RNA-seq
Seurat
sci-RNA-seq
updated 1 day ago by
Ram
43k • written 1 day ago by
kilcdincer
▴ 10
4
votes
4
replies
2.9k
views
CNVkit for somatic copy number detection
cnv
cnvkit
exome
WES
updated 1 day ago by
Anitha
• 0 • written 5.1 years ago by
stephaniem
• 0
1
vote
7
replies
370
views
Overlapping Ranges within Granges object
Genomicranges
IRanges
GRanges
1 day ago by
ntsopoul
▴ 60
0
votes
3
replies
196
views
How to access GWAVA software of data
GWAVA
updated 1 day ago by
GenoMax
142k • written 1 day ago by
nonaddldy
▴ 10
0
votes
2
replies
210
views
Inquiry about deseq2 transformation
RNA-seq
deseq2
9 hours ago by
Chen
• 0
1
vote
1
reply
167
views
The total expressed genes in RNA-Seq data
RNA-SEQ
updated 2 days ago by
ATpoint
82k • written 2 days ago by
Pegasus
▴ 100
0
votes
1
reply
127
views
What is the bin size for Bamcompare?
chip-seq
deeptools
bamcompare
updated 1 day ago by
Ram
43k • written 2 days ago by
Emily
▴ 20
1
vote
1
reply
175
views
Is there any way to modify this pie chart ?
pie
ggplot
R
chart
updated 2 days ago by
zx8754
11k • written 2 days ago by
ohtang7
▴ 40
0
votes
0
replies
90
views
In what situations is 'outer' typically used when using anndata.concat()?
concat
anndata
scanpy
2 days ago by
Spring
• 0
0
votes
2
replies
172
views
Is it necessary to do genotype quality filteration after snp calling with GATK
snp
filteration
genotype
quality
GATK
1 day ago by
IdaHao0921
• 0
0
votes
3
replies
336
views
Snakemake wrapper issue
fastqc
snakemake
updated 2 days ago by
Wei-Chen Pan
• 0 • written 9 weeks ago by
Matvii Mykhailichenko
• 0
2
votes
5
replies
255
views
What does the 'E%' represent in BUSCO results?
BUSCO
updated 2 days ago by
Philipp Bayer
8.5k • written 2 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 1 day ago by
Ram
43k • written 13 months ago by
mohyeddine.taleb
• 0
2
votes
4
replies
206
views
Help with IGV abbreviation
igv
updated 1 day ago by
Ram
43k • written 2 days ago by
GeneC
• 0
0
votes
1
reply
157
views
How to process Bulk WES data?
WES
WGS
updated 2 days ago by
GenoMax
142k • written 2 days ago by
wyuan37
• 0
0
votes
1
reply
154
views
Can diamond prepdb be used to make a taxonomically aware database?
blast
diamond
taxonomy
updated 2 days ago by
GenoMax
142k • written 2 days ago by
cedric.blais
• 0
0
votes
2
replies
419
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
2 days ago by
David Langenberger
11k
0
votes
1
reply
143
views
Empty .best and .sing2 Files After Running Demuxlet
Biosciences
Demuxlet
updated 2 days ago by
Ram
43k • written 2 days ago by
eking28
• 0
2
votes
5
replies
484
views
featureCounts output summary assigned value higher than uniquely mapped reads from HISAT2
RNA-seq
featureCounts
HISAT
updated 1 day ago by
Ram
43k • written 7 days ago by
Prawesh
• 0
1
vote
3
replies
423
views
Clarification regarding SAM flags "mate reverse strand" (flag 16/0x10) and "read reverse strand" (flag 32/0x20)
PE
BAM
SAM
flag
paired-end
2 days ago by
kalavattam
▴ 190
1
vote
2
replies
259
views
How to interpret infinite odds ratio?
statistics
1 day ago by
Lukas
• 0
1
vote
2
replies
171
views
Duplicated sequence samtools
bowtie2
samtools
updated 2 days ago by
GenoMax
142k • written 2 days ago by
Moinuddin
• 0
0
votes
0
replies
101
views
reference-free assembly error assessment tools
assembly
2 days ago by
lagartija
▴ 160
2
votes
4
replies
281
views
Benchmarking RNASeq Variant Calling Pipeline (Short Reads)
rna-seq
vcf
variant-calling
1 day ago by
Esraa
• 0
2
votes
0
replies
136
views
Herald:
The Biostar Herald for Monday, May 13, 2024
herald
2 days ago by
Biostar
2.8k
0
votes
1
reply
136
views
Splitting Seurat object by sample layers
seurat
updated 2 days ago by
Ram
43k • written 2 days ago by
kilcdincer
▴ 10
0
votes
4
replies
245
views
Galaxy StringTie error
stringtie
galaxy
1 day ago by
trkfs
• 0
0
votes
0
replies
100
views
dbNSFP sift scores integration
SIFT
VEP
dbNSFP
2 days ago by
atariw
▴ 10
0
votes
1
reply
150
views
Mouse ribosome sequences in fasta format
fasta
mm10
rRNA
updated 2 days ago by
GenoMax
142k • written 3 days ago by
octpus616
▴ 100
1
vote
4
replies
331
views
Getting the coding_sequence.fasta from the .gff file from the AUGUSTUS gene prediction.
augustus
annotation
assembly
genome
updated 1 day ago by
Juke34
8.6k • written 2 days ago by
Vijith
▴ 30
0
votes
1
reply
155
views
consensus sequence calling
consensus
updated 2 days ago by
bk11
★ 2.4k • written 2 days ago by
Ghada
• 0
0
votes
3
replies
184
views
Single-cell RNA-seq FindMarker and EnhancedVolcano Plot: most genes are low -log10P value
Seurat
single-cell
scRNA-seq
R
updated 2 days ago by
Ram
43k • written 2 days ago by
yau
• 0
3
votes
2
replies
270
views
imputation through beagle
panel
beagle
reference
imputation
2 days ago by
analyst
▴ 50
0
votes
0
replies
86
views
Empty kernel in SEACells model
single-cell
scanpy
seacells
python
anndata
2 days ago by
JACKY
▴ 140
0
votes
1
reply
517
views
Using samtools with GCS (google cloud storage) on a docker container seems to give "Protocol Not Supported" error
samtools
gcs
updated 2 days ago by
aw7
▴ 300 • written 26 days ago by
abhishekghadge
• 0
3
votes
1
reply
209
views
Long reads and fixing of mate-pair issues/marking duplicates with samtools
mate-pair
samtools
alignment
updated 2 days ago by
aw7
▴ 300 • written 7 days ago by
Zeng Hao
▴ 40
0
votes
0
replies
98
views
Reference panel of normals for ensembl named refgenome
Mutect2
2 days ago by
gernophil
▴ 80
1
vote
0
replies
94
views
Producing sequence for splicing isoforms
isoform
rMATs
splicing
alternative
SplAdder
2 days ago by
tomas4482
▴ 400
2
votes
6
replies
367
views
BWA alignment
Samtools
bam
updated 1 day ago by
a.alnawfal.1992
▴ 260 • written 3 days ago by
Vahid
• 0
3
votes
2
replies
185
views
Publish a Letter in higher impact vs Research article in lower impact
Article
Letter
Journal
updated 2 days ago by
ATpoint
82k • written 3 days ago by
jennyp0706
• 0
0
votes
1
reply
156
views
Manual Assembly and Protein Translation, HELP, assignment revision
sequence
university
assembly
protein
genomics
updated 3 days ago by
Philipp Bayer
8.5k • written 3 days ago by
samRayne
• 0
116,970 results • Page
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Comment: ggrepel function: geom_text_repel()
Comment: Missing protein (VEGF-A) in String db
Comment: PyWGCNA
PyWGCNA
Collect dispersed executable files and run them by using bingo.
A: ensembl gene id
A: How to deal with the case that one gene symbol matches multiple ensembl ids?
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Comment: Annotating file using bcftools
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kl
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It worked with this bcftools index -t $DATADIR/cpro_imputed_hrcgrch37.R2_0.3.vcf.gz bcftools annotate \ -a $RefGenomes/All_20180423.vcf.gz…
Comment: DEG analysis with limma and contrast matrix using multiple Parkinson's cohorts i
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This is true. However, there are a number of studies that have done bioinformatics analysis in whole blood to see if there is a possibility…
Comment: ggrepel function: geom_text_repel()
by
sooni
▴ 20
Thank you for help! I solved the probelm with the package.
Comment: DEG analysis with limma and contrast matrix using multiple Parkinson's cohorts i
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egascon
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I have checked the quality of the arrays using PCA and Boxplot (images attached) and some of the samples may deviate a little but perhaps n…
Comment: Blastn error : ncbi::CObject::ThrowNullPointerException() - Attempt to access NU
by
hophuquy0944
• 0
the nt database was extracted, and this is latest version of nt database in ncbi and blastn with version 2.15. I used many query file.fast…
Comment: Blastn error : ncbi::CObject::ThrowNullPointerException() - Attempt to access NU
by
hophuquy0944
• 0
they don't have clear answer for this problem. I run all subset of this data to find out error subsets database but it seem not any error i…
Comment: ggrepel function: geom_text_repel()
by
zx8754
11k
There is a dedicated package for this, see - https://bioconductor.org/packages/release/bioc/html/EnhancedVolcano.html
Comment: Sam file Header problem
by
Pierre Lindenbaum
161k
-R "@RG\tID:sample\tSM:sample\tPL:Illumina" where is this '@RG' in the header anyway ? are you sure you're handling the correct fil…
Comment: Blastn error : ncbi::CObject::ThrowNullPointerException() - Attempt to access NU
by
Pierre Lindenbaum
161k
it looks like the same error.
Comment: how to treat the replicates while performing WGCNA
by
mavy
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Thankyou so much Andres for your reply. I think I got your point, just have a couple of quick questions to make it more clear . 1) I do n…
Comment: Duplicated reads (IDs) from nanopore sequencing
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njornet
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I've looked into it and one of the reads with a supplementary alignment has the representative alignment aligning to the + strand and being…
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kuttibiotech2009
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Hello friends, Thank you for your feedback. I understand that the post may not directly relate to bioinformatics. My aim was to share …
Comment: how to treat the replicates while performing WGCNA
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andres.firrincieli
3.6k
You do not merge the MEs. It is quite normal that some modules have noisy eigengenes (MEs); WGCNA is an unsupervised analysis overall. By …
Comment: Blastn error : ncbi::CObject::ThrowNullPointerException() - Attempt to access NU
by
hophuquy0944
• 0
my blast is latest version 2.15. I don't know what you want me to see in this link.
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valdirbarth
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Is it possible that the cells that have their VDJ sequenced, those VDJ reads are not contributing to new genes detected? So you might be …
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