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113,899 results • Page
1 of 2278
Sort: Rank
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Views
Votes
Replies
0
votes
0
replies
13
views
Can't install hisat2 with miniconda
unix
miniconda
hisat2
1 hour ago by
Ozymandeus
▴ 30
0
votes
0
replies
29
views
Which language use as a beginner in Bioinformatics and Computational genomics
genomics
Bioinformatics
Computational
2 hours ago by
2021ag7698
• 0
0
votes
0
replies
38
views
Should I perform eQTL colocalization for just one of eGenes at a time?
colocalization
coloc
eCaviar
eQTL
5 hours ago by
maximal_life
▴ 20
0
votes
1
reply
98
views
Dimensionality reduction on data sets with variable dimensions
PCA
dimensionality_reduction
RNA_secondary_structure
updated 10 hours ago by
Mensur Dlakic
★ 25k • written 11 hours ago by
rtrende
▴ 80
772
votes
164
replies
129k
views
107 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 8 weeks ago by
Biostar
2.3k • written 7.0 years ago by
Istvan Albert
99k
1
vote
1
reply
112
views
KEGG DATABASE
DATABASE
KEGG
updated 10 hours ago by
Mensur Dlakic
★ 25k • written 11 hours ago by
Sijjil
• 0
4
votes
2
replies
130
views
Fastest way to convert BED to GTF/GFF with gene_ids?
gff
convert
bed
gtf
updated 5 hours ago by
cmdcolin
★ 3.4k • written 12 hours ago by
alejandrogzi
▴ 110
4
votes
0
replies
203
views
Tool:
NOEL: An extremely fast Non-Overlapping Exon Length calculator written in Rust
gene-annotation
exon-length
12 hours ago by
alejandrogzi
▴ 110
2
votes
3
replies
662
views
Generate a sequence of specific length with a list of motifs and intersperse with spacers
python
R
perl
motif
sequence
updated 15 hours ago by
mopejij688
• 0 • written 2.5 years ago by
rykerklie7
▴ 30
0
votes
3
replies
180
views
best BLAST hits - which criteria is more important?
blast
updated 10 hours ago by
Mensur Dlakic
★ 25k • written 18 hours ago by
min
• 0
2
votes
4
replies
290
views
Is bisulfite-seq data from different studies comparable with each other?
Methylation
updated 17 hours ago by
NextGenSeek
• 0 • written 3 days ago by
CTLong
▴ 20
0
votes
1
reply
146
views
Issue with genetic QC sex check
plink
20 hours ago by
kl
▴ 10
0
votes
0
replies
61
views
BioSQL Unable to remove database using server.remove_database
BioSQL
biopython
Mysql
Python
20 hours ago by
Navindu
• 0
0
votes
4
replies
237
views
Bioinformatics: what do you think of it in the next 20 years?
question
Bioinformatics
updated 4 hours ago by
GenoMax
136k • written 22 hours ago by
Daniel
• 0
0
votes
0
replies
67
views
bootstraped treemix show no migration event
Treemix
Bootstrap
22 hours ago by
reza
▴ 300
0
votes
1
reply
144
views
Are 10x cellranger-arc ATAC bam files deduplicated?
singlecell
10x
updated 1 day ago by
swbarnes2
13k • written 1 day ago by
WaterMetal
• 0
1
vote
6
replies
342
views
From TPM to raw counts
tpm
Deconvolution
rnaseq
14 hours ago by
Gama313
▴ 120
0
votes
2
replies
179
views
Low coverage whole genome sequencing reveal excess heterozygosity for multiple SNPs. How to filter?
lcWGS
WGS
heterozygosity
1 day ago by
beausoleilmo
▴ 560
3
votes
3
replies
361
views
How to obtain data on the coordinates of the Exon region from UCSC
hg19
UCSC
exon
1 day ago by
ayasu
• 0
2
votes
4
replies
230
views
Using metagenome assembly and binning to identify and mitigate contamination in a genome
genomes
contamination
metagenomics
updated 1 day ago by
Mensur Dlakic
★ 25k • written 1 day ago by
btc347
• 0
0
votes
2
replies
1.5k
views
Does GNOMAD use all LOFTEE LoF filters?
loftee
gnomad
LOF
ensembl
vep
updated 1 day ago by
AMARU
• 0 • written 3.8 years ago by
brismiller
▴ 50
0
votes
3
replies
759
views
"MethylKit" package for WGBS data
MethylKit
WGBS
updated 1 day ago by
viveksomya123
• 0 • written 2.3 years ago by
shrinka.genetics
▴ 20
4
votes
3
replies
281
views
GO categorization
Ontology
Gene
updated 1 day ago by
geneontologyhelp
▴ 290 • written 2 days ago by
m.habib
• 0
0
votes
0
replies
95
views
is there a way to set colors pallets for glMDSPlot(x)?
Glimma
glMDSPlot
1 day ago by
James
• 0
0
votes
0
replies
172
views
Job:
Postdoc in comparative genomics of plant-associated bacteria (Polytechnic University of Madrid, SPAIN)
evolution
genomics
mutation
bacteria
genomes
1 day ago by
Alejandro
• 0
0
votes
1
reply
337
views
The number of variations in the pan-genome is reduced compared to the variations in the input VCF file
vg
updated 1 day ago by
Jordan M Eizenga
▴ 410 • written 8 days ago by
Wenke
• 0
0
votes
1
reply
203
views
How to find node Postion and source(sample) ?
vg
updated 1 day ago by
Jordan M Eizenga
▴ 410 • written 4 days ago by
zhang yi xing
▴ 20
0
votes
0
replies
103
views
Job:
Assistant Professor: Molecular Biology
Biology
Molecular
UCSD
1 day ago by
lta
▴ 10
0
votes
0
replies
86
views
Compute matrix skipping many regions stating not found in compute matrix output
computematrix
Deeptools
1 day ago by
Mehwish
▴ 10
0
votes
0
replies
111
views
How to find promoters (such as GC box and TATA box) in set of genes using bioinformatics analysis ?
motifs
promoters
bioinformatics
1 day ago by
shome
▴ 10
1
vote
1
reply
157
views
Finding human .vcf files online to download
human
findvcf
vcf
updated 1 day ago by
cmdcolin
★ 3.4k • written 1 day ago by
eren.idil
▴ 10
0
votes
2
replies
217
views
Can I use TCGA-LUAD RNAseq count that had already normalized by RSEM in Limma-voom
RNAseq
differential-gene-expession
limma
batch-effect
1 day ago by
fluke
• 0
2
votes
4
replies
251
views
How Can I move the scattered dots more closer into the center of box ?
R
Boxplots
geom_jitter
16 hours ago by
ohtang7
▴ 40
0
votes
1
reply
147
views
How to identify CG, CHG, or CHH from MeDIP data
MethylationStudy
CHG
CHH
CG
MeDIP
1 day ago by
Tm
★ 1.1k
0
votes
0
replies
110
views
Significance of several BUSCO target IDs for the same gene
target_id
sequence-ontology
BUSCO
duplication
1 day ago by
CoLa
• 0
0
votes
0
replies
120
views
Issue softclipping reads when they belong and don't belong to a common amplicon
Samtools
softclip
1 day ago by
ManuelDB
▴ 80
12
votes
6
replies
398
views
Problematic fastq files...How can we trust them?
fastq
1 day ago by
blackadder
▴ 30
1
vote
3
replies
221
views
An incomprehensible error with R package gggenes
R
gggenes
visualize
updated 1 day ago by
ATpoint
78k • written 1 day ago by
alice005201314
• 0
3
votes
2
replies
244
views
Should I scale all genes in single cell Seurat?
singlecell
1 day ago by
synat.keam
▴ 80
0
votes
1
reply
159
views
doubt about usage of megahit
trinity
megahit
updated 1 day ago by
Istvan Albert
99k • written 2 days ago by
meera
• 0
0
votes
0
replies
108
views
Osmotic permeability of water transport in aquaporins
permeability
Osmotic
transport
Water
2 days ago by
Peerzada
• 0
0
votes
1
reply
162
views
DIAMOND tutorial
tutorial
DIAMOND
updated 2 days ago by
GenoMax
136k • written 2 days ago by
sooni
▴ 10
0
votes
13
replies
954
views
Generating count matrix from Chromium Fixed RNA Profiling (FRP) data outside Cell Ranger.
fixed-RNA-profiling
chromium
cellranger
scFFPE
updated 2 days ago by
MohammadAlkadi
▴ 70 • written 6 weeks ago by
bk11
★ 1.8k
0
votes
2
replies
249
views
Guidance on Crucial Parameters for Bioinformatic Analysis of Metabolomic Data
metabolomic
bioinformatic
updated 2 days ago by
Kevin Blighe
86k • written 2 days ago by
Giovana
• 0
2
votes
8
replies
714
views
6 follow
WGCNA tutorial docs needed: Horvath Lab site down
WGCNA
updated 2 days ago by
ATpoint
78k • written 20 days ago by
ellen.francis
▴ 10
0
votes
0
replies
131
views
How to estimate -g genome-size for Flye for de novo genome or for --meta mode when using Metaflye?
assembly
fasta
genomics
nanopore
pacbio
2 days ago by
O.rka
▴ 710
0
votes
1
reply
424
views
Loftee no splice site annotations
Loftee
VEP
updated 2 days ago by
AMARU
• 0 • written 21 months ago by
Filago
▴ 90
1
vote
1
reply
204
views
Bulk and Single Cell RNA-seq online course
single_cell_RNA-seq
bulk_RNA-seq
online_course
updated 2 days ago by
swbarnes2
13k • written 2 days ago by
ire
• 0
1
vote
1
reply
165
views
gene set enrichment analysis- by enrichGO
rna-seq
GO
enrichment
updated 2 days ago by
Istvan Albert
99k • written 2 days ago by
CL
• 0
0
votes
0
replies
118
views
how to download the VCF/MAF files from cBioportal genie site
cBioportal
mutation
VCF
TMB
2 days ago by
luckyday1661
• 0
113,899 results • Page
1 of 2278
Recent Votes
NOEL: An extremely fast Non-Overlapping Exon Length calculator written in Rust
Comment: Fastest way to convert BED to GTF/GFF with gene_ids?
Answer: Fastest way to convert BED to GTF/GFF with gene_ids?
Comment: KEGG DATABASE
Answer: Fastest way to convert BED to GTF/GFF with gene_ids?
Fastest way to convert BED to GTF/GFF with gene_ids?
NOEL: An extremely fast Non-Overlapping Exon Length calculator written in Rust
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Comment: Bioinformatics: what do you think of it in the next 20 years?
by
GenoMax
136k
> what do you think of it in the next 20 years? It will be what people like you make of it (assuming you are just starting out and that is…
Comment: Fastest way to convert BED to GTF/GFF with gene_ids?
by
cmdcolin
★ 3.4k
thanks for making these great tools
Answer: Dimensionality reduction on data sets with variable dimensions
by
Mensur Dlakic
★ 25k
Not sure whether what you want to do will be informative. That aside, UMAP works with sparse data. Simply insert missing values for shorter…
Comment: KEGG DATABASE
by
Mensur Dlakic
★ 25k
It happens.
Comment: best BLAST hits - which criteria is more important?
by
Mensur Dlakic
★ 25k
If your goal is to find the most similar sequence to your references, you have a correct sorting order. The next two criteria should probab…
Comment: best BLAST hits - which criteria is more important?
by
min
• 0
thank you for correcting me. What I actually did was run a search using mmseqs2 and diamond to find similar enzymes in a MAG for my referen…
Answer: Fastest way to convert BED to GTF/GFF with gene_ids?
by
alejandrogzi
▴ 110
This is probably a duplicated question from: [How To Convert Bed Format To Gtf?](https://www.biostars.org/p/64346/) [How to convert …
Comment: From TPM to raw counts
by
Gama313
▴ 120
I will give it a try and I will report results! Thanks for your help!
Comment: Bioinformatics: what do you think of it in the next 20 years?
by
Mensur Dlakic
★ 25k
Complaining about format conversions is like a wet biologist complaining about Westerns to prove protein expression. It is tedious and has …
Answer: best BLAST hits - which criteria is more important?
by
Mensur Dlakic
★ 25k
There is no way to run BLAST using mmseqs2 and diamond. Maybe you mean that you compared sequences using mmseqs2 and diamond? > I need to …
Comment: Bioinformatics: what do you think of it in the next 20 years?
by
Istvan Albert
99k
10 years ago https://www.biostars.org/u/36/ told us: >I've been doing bioinformatics for about 10 years now. I used to joke with a friend …
Comment: From TPM to raw counts
by
Istvan Albert
99k
Now that I thought about it more, you'll need the total number of reads mapped to produce the normalization factor. You can undo the TPM o…
Comment: How Can I move the scattered dots more closer into the center of box ?
by
ohtang7
▴ 40
You're right. I would get help from StackExchange sites and GPT
Answer: Is bisulfite-seq data from different studies comparable with each other?
by
NextGenSeek
• 0
The efficiency of bisulfite treatment itself can differ significantly, so I would definitely not compare bisulfite-seq data from different …
Comment: Issue with genetic QC sex check
by
kl
▴ 10
After setting set-hh-missing, I have the following boxplot, where a F statistic of 0.91 corresponds to a female in my phenotypic dataset wh…
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