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117,171 results • Page
1 of 2344
Sort: Rank
Rank
Views
Votes
Replies
2
votes
2
replies
47
views
help in changing Y scale in R
ggplot2
R
updated 2 hours ago by
Medhat
9.7k • written 2 hours ago by
Ghada
• 0
1
vote
1
reply
31
views
Intersection of multiple vcf files
isec
vcf
bcftools
updated 1 hour ago by
Jeremy Leipzig
22k • written 2 hours ago by
avelarbio46
▴ 30
3
votes
1
reply
101
views
when I use htslib to write a bam. Error of "truncated file" shows by samtools
bam
htslib
updated 2 hours ago by
John Marshall
3.0k • written 6 hours ago by
Aaron
▴ 10
801
votes
167
replies
144k
views
109 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 4 months ago by
Biostar
2.8k • written 7.5 years ago by
Istvan Albert
100k
0
votes
0
replies
22
views
Using a within population reference genome - Recombination
relernn
vcf
popgen
recombination
3 hours ago by
dylan
• 0
0
votes
0
replies
40
views
NCBI vs Ensembl - Ortholog genes Information
Genomics
Orthologs
NCBI
Ensembl
updated 4 hours ago by
Pierre Lindenbaum
162k • written 4 hours ago by
José
▴ 10
0
votes
0
replies
47
views
Why does WGCNA use weighted correlation instead of Pearson correlation?
wgcna
6 hours ago by
絶望燃やし
• 0
0
votes
5
replies
150
views
I cannot download VG in any way
vg
vgteam
updated 6 hours ago by
GenoMax
142k • written 8 hours ago by
gforg34
• 0
0
votes
0
replies
44
views
reference geome gaf file obsolent GO replacement
gaf
GO
8 hours ago by
Nicolas
• 0
0
votes
1
reply
87
views
Can I count UMI-barcode combination without mapping?
HyDrop
protein
UMI
UMI-Tools
updated 6 hours ago by
GenoMax
142k • written 8 hours ago by
Assa Yeroslaviz
★ 1.9k
1
vote
2
replies
121
views
How do I check if a DNA sequence of a gene is supported by RNAseq data?
Genetics
RNA-seq
Phase-variation
Alignment
8 hours ago by
Jack
• 0
0
votes
4
replies
696
views
Illumina EPIC v2 IlmnIDs and probe names
Illumina
EPIC
EPICv2
updated 9 hours ago by
Papyrus
★ 2.9k • written 6 months ago by
christine.a.pedersen
▴ 10
3
votes
6
replies
217
views
Best practices in Fungal Genome Assembly
illumina
assembly
nanopore
genome
2 hours ago by
Umer
▴ 50
0
votes
1
reply
138
views
Confirmation required on how DiffBind generates union of regions (min. 1bp overlap or gap)?
DiffBind
updated 11 hours ago by
GenoMax
142k • written 14 hours ago by
Ian
6.0k
2
votes
1
reply
133
views
Is there any minimum number of counts in scRNAseq to consider that a gene is expressed?
scRNAseq
single-cell
seurat
scanpy
UMI
updated 12 hours ago by
ATpoint
82k • written 14 hours ago by
ev97
▴ 20
1
vote
9
replies
356
views
Error with pheatmap - 'from' must be a finite number
pheatmap
r
deseq2
updated 2 hours ago by
zx8754
11k • written 1 day ago by
vmpsb
• 0
0
votes
0
replies
60
views
Regarding ENSEMBL/Gencode and UCSC differences (ATAC-seq, ChiPseeker peaks annotation)
ATAC-seq
CHiPseeker
Annotation
15 hours ago by
Manko47
• 0
3
votes
7
replies
447
views
Z score
Z-score
updated 14 hours ago by
ATpoint
82k • written 5 days ago by
Akash D
▴ 60
1
vote
2
replies
155
views
Polygenic Risk Score calculation
snp
polygene
prs
variants
12 hours ago by
ashaneev07
▴ 20
2
votes
2
replies
342
views
Annotating single cell data automatically
single-cell
updated 17 hours ago by
Nat.Nataren
▴ 20 • written 5 weeks ago by
Gerard
• 0
0
votes
0
replies
63
views
EXOME DEPTH - CNV
CNV
17 hours ago by
Neha
• 0
0
votes
2
replies
130
views
coding and non-coding region of the viral genome
viral-genome
4 hours ago by
Ghada
• 0
2
votes
2
replies
115
views
dbNSFP4.7a database format to Annovar Format?
snp
annovar
NGS
dbNSFP
updated 9 hours ago by
Ram
44k • written 18 hours ago by
Clark_BioMorgan
▴ 50
0
votes
2
replies
153
views
Salmon ~ Effective Length
Salmon
updated 12 hours ago by
GenoMax
142k • written 22 hours ago by
chrisk
• 0
2
votes
3
replies
232
views
Search within posts based on tags using the Biostars API
api
meta
updated 9 hours ago by
Ram
44k • written 1 day ago by
Bálint
▴ 10
0
votes
0
replies
68
views
Funcotator gnomAD incoherent number of output fields
gatk
gnomAD
Funcotator
updated 9 hours ago by
Ram
44k • written 22 hours ago by
jaime alvarez
▴ 30
0
votes
1
reply
132
views
Help with proteomics downstream analysis
mass-spectrometry
proteomics
updated 21 hours ago by
Ram
44k • written 1 day ago by
Álvaro
• 0
1
vote
2
replies
160
views
How to Convert CNV Data to CNA Format for Reproducing Results with the Padma Package?
multi-omics
CNV
R
2 hours ago by
Ngrin
• 0
0
votes
0
replies
69
views
Calculating F_IS, F_IT on ancient DNA
adna
1 day ago by
devenvyas
▴ 740
0
votes
0
replies
70
views
The number of region with the motif sequence is different between HOMER outputs
findMotifsGenome
HOMER
annotatePeaks
1 day ago by
Aki
▴ 20
3
votes
3
replies
859
views
Cut&Run and heatmap
MACS2
bowtie2
updated 9 hours ago by
Ram
44k • written 13 months ago by
qudrat.nii
▴ 10
3
votes
12
replies
5.4k
views
7 follow
txt file to bigwig
MEME
bigwig
updated 9 hours ago by
GenoMax
142k • written 8.6 years ago by
tanni93
▴ 50
2
votes
2
replies
208
views
Help me with Heatmap
RNA-seq
R
DESeq2
updated 15 hours ago by
zx8754
11k • written 1 day ago by
vmpsb
• 0
0
votes
2
replies
136
views
identify the coordinate for coding and non_coding region.
coding
non_coding
1 day ago by
Ghada
• 0
64
votes
25
replies
57k
views
22 follow
Download All The Bacterial Genomes From Ncbi
ncbi
updated 1 day ago by
GenoMax
142k • written 11.4 years ago by
rehma.ar
▴ 290
3
votes
2
replies
155
views
How do i calculate the mean of triplicates in a data.frame based on pattern?
tidyverse
r
updated 14 hours ago by
zx8754
11k • written 1 day ago by
Assa Yeroslaviz
★ 1.9k
1
vote
2
replies
188
views
Salmon vs Kallisto vs RSEM
RSEM
quantification
kallisto
Salmon
16 hours ago by
Mohamed Abderrahmane
▴ 20
0
votes
0
replies
114
views
virus genome annotation
annotation
gff3
consensus
NCBI
coding_regions
updated 6 hours ago by
Ram
44k • written 1 day ago by
Ghada
• 0
3
votes
7
replies
2.3k
views
Tool:
Python script to query GeneCards to get EntrezID, symbol from Ensembl geneID
biomart
annotation
Ensembl
updated 5 hours ago by
Ram
44k • written 2.8 years ago by
Shred
★ 1.4k
0
votes
0
replies
106
views
Subset of Transcripts- How do I proceed with it?
Stringtie
updated 5 hours ago by
Ram
44k • written 1 day ago by
Varsha
• 0
1
vote
2
replies
3.8k
views
How can run cd-hit-est with a clstr threshold less than 0.8?
cd-hit
cluster
updated 1 day ago by
Asaf
10k • written 6.3 years ago by
m.koohi.m
▴ 120
0
votes
2
replies
255
views
Tools for chromosomal aneuploidy detection
human-genetics
aneuploidy
NGS
updated 5 hours ago by
Ram
44k • written 5 days ago by
adarsh_pp
▴ 40
0
votes
0
replies
90
views
PyRMD
machine-learning
cheminformatics
Virtual-Screening
updated 4 hours ago by
Ram
44k • written 1 day ago by
s
• 0
3
votes
4
replies
234
views
Invalid CIGAR after using bam clipOverlap
validatesamfile
cigar
bam
clipoverlap
1 day ago by
MboiTui
▴ 20
0
votes
0
replies
111
views
Determining rs ids from SNP HGV base ID?
rsID
HGV
SNP
updated 21 hours ago by
Ram
44k • written 1 day ago by
Katherine
• 0
0
votes
4
replies
313
views
How to add Ensembl ids after Pseudobulk analysis by DESeq2
Seurat
Pseudobulk
single-cell
DESeq2
scRNA
updated 9 hours ago by
jared.andrews07
★ 17k • written 3 days ago by
Sara
▴ 30
0
votes
1
reply
191
views
Facing problem with single cell rna seq annotation using singleR
singleR
scRNAseq
updated 4 hours ago by
Ram
44k • written 2 days ago by
sc_analysis
• 0
0
votes
0
replies
100
views
Imputed data doesn't match directly genotyped APOE genotype
APOE
directgenotyping
imputation
2 days ago by
kl
▴ 10
0
votes
0
replies
113
views
Tubemap multiseq
vg
2 days ago by
karciharun42
• 0
5
votes
3
replies
5.9k
views
Attempt to set 'rownames' on an object with no dimensions
R
microbiome
spieceasi
updated 2 days ago by
GenoMax
142k • written 3.6 years ago by
ks.sholohova
▴ 30
117,171 results • Page
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Answer: help in changing Y scale in R
Comment: help in changing Y scale in R
Comment: Intersection of multiple vcf files
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Answer: Does HaploView perform phasing?
Does HaploView perform phasing?
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Recent Replies
Comment: Rseqc infer_experiment.py: 0 usable reads sampled and unknown data type
by
mazegriff
• 0
Hi pubsurfted, I ran into the same issue using a reference transcriptome with HISAT2 from the Ensembl database. For others with similar e…
Comment: Intersection of multiple vcf files
by
Jeremy Leipzig
22k
isec is pretty awful for these set operations - especially since individual samples present alleles, not lines in a VCF file. If you can co…
Comment: help in changing Y scale in R
by
Medhat
9.7k
Maybe try to calculate min and max combined_min <- min(a_filtered$value, a_filtered_tv$value, na.rm = TRUE) combined_max <- max(a_…
Answer: help in changing Y scale in R
by
ATpoint
82k
Use `+ylim(c(lower, upper))`. Either set manually, or query both `a_filtered` and `a_filtered_tv` for the minimum and maximum values that g…
Comment: Error with pheatmap - 'from' must be a finite number
by
zx8754
11k
I am not familiar with deseq data, but if it makes sense, remove rows/columns that have only NAs. #remove rows x<- mat.z[ rowSums(…
Answer: when I use htslib to write a bam. Error of "truncated file" shows by samtools
by
John Marshall
3.0k
There are several problems with this code: 1. You have not set `b->l_data`, which here should be set to the same value as `b->m_data`. T…
Comment: Best practices in Fungal Genome Assembly
by
Umer
▴ 50
Should I use both Recon and Pilon for polshing ? Recon uses Long-reads and Pilon uses short-read. if both should be used, is their any pref…
Comment: Mutation counts corrected by number of samples
by
garcesj
▴ 50
How come? If I have a pro-tumorigenic product, for example, wouldn't this comparison be valid?
Comment: How to Convert CNV Data to CNA Format for Reproducing Results with the Padma Pac
by
Ngrin
• 0
Thanks @Zhenyu Zhang for your response. I have just looked at the files you mentioned. Do you have any recommended package or code snippet …
Comment: coding and non-coding region of the viral genome
by
Ghada
• 0
As far I understand non coding region equal to the intergenic region? please can you write an example for how to calculate one region ? I…
Comment: How to Convert CNV Data to CNA Format for Reproducing Results with the Padma Pac
by
Zhenyu Zhang
★ 1.2k
In the GDC, there are raw float value CNV data, and integer CNV values after advanced modeling. If you only want those floating-point numbe…
Comment: Python script to query GeneCards to get EntrezID, symbol from Ensembl geneID
by
Ram
44k
Please edit your original post and add this at the top so everyone reads that first. GeneCards politely asks people not to scrape - not res…
Comment: I cannot download VG in any way
by
Ram
44k
In that case, OP should have said "Cannot install SequenceTube", since that is the problem, not vg. Maybe this is the SequenceTube that OP…
Comment: I cannot download VG in any way
by
GenoMax
142k
I read that to mean that the only way they were able to download `vg` was by using `conda`. Since `SequenceTube` (whatever that is) require…
Comment: I cannot download VG in any way
by
Ram
44k
> The only way that I managed to download vg is using conda, however since my primary goal is to download SequenceTube You're mentioning t…
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