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119,419 results • Page
1 of 2389
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0
votes
0
replies
5
views
Are there specific pipelines for identifying solo-TIRs?
solo-TIR
elements
transposable
10 minutes ago by
Marcos
▴ 10
0
votes
0
replies
16
views
Forum:
Optical Duplicates
bioinformatics
optialduplicates
MarkDuplicates
gatk
1 hour ago by
ebogen
• 0
2
votes
1
reply
113
views
Tool:
A notebook for checking relatedness and X heterozygosity from sequencing data
heterozygosity
relatedness
sequencing
sex
estimation
updated 2 hours ago by
Jeremy Leipzig
22k • written 11 hours ago by
barslmn
★ 2.3k
0
votes
0
replies
40
views
Signac for mgatk scRNA-seq data
mgatk
Signac
scRNA-seq
4 hours ago by
marco.barr
▴ 150
820
votes
169
replies
158k
views
110 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 7 weeks ago by
Biostar
3.0k • written 7.9 years ago by
Istvan Albert
101k
0
votes
0
replies
35
views
Homer annotatePeaks.pl output
start
annotatePeaks.pl
chr
homer
position
updated 3 hours ago by
GenoMax
146k • written 4 hours ago by
Rakesh
• 0
0
votes
0
replies
38
views
Is there a function in cytoscape for calculating node strength ?
network
cytoscape
igraph
4 hours ago by
SplitInf
▴ 10
0
votes
0
replies
53
views
Question about variant calling method using pangenome-graph
vg
6 hours ago by
Marion
• 0
1
vote
2
replies
132
views
Extract gene_id and protein_id from .gtf file to create a list with them
gtf
bash
protein_id
4 hours ago by
Eduardo Oñate
• 0
0
votes
0
replies
54
views
GEOquery getGEO is normalized data or not?
getgeo
geoquery
microarray
7 hours ago by
tyasird
▴ 10
3
votes
8
replies
415
views
Indexing a 2.6GB Plant Genome Using STAR (genomeGenerate Mode) Terminated Due to RAM Limit — Can the Genome Be Split for Indexing, or Are There Other…
star
RAN-seq
bam
genome
indexing
updated 7 hours ago by
colindaven
6.8k • written 1 day ago by
Vijith
▴ 60
1
vote
3
replies
194
views
Tool:
I Built a Simple Website to Help Researchers find Research Grants
web-application
grants
research
funding
updated 6 hours ago by
GenoMax
146k • written 10 hours ago by
bitsofadventures
▴ 40
3
votes
1
reply
181
views
Differential Expression Analysis with only one replicate
Differential-Expression-analysis
updated 7 hours ago by
Ram
44k • written 21 hours ago by
ZuelTech
• 0
4
votes
6
replies
286
views
Basic de novo assembly of plant genome
Assembly
8 hours ago by
Lemonhope
▴ 10
0
votes
3
replies
425
views
TCGAbiolinks - fewer samples than expected
TCGABiolinks
TCGA
14 hours ago by
elmira.yazdii
• 0
0
votes
0
replies
93
views
NCI Genomic Data Commons gdc-rnaseq-tool
RNA-seq
Genomic-Data-Commons
updated 7 hours ago by
Ram
44k • written 18 hours ago by
cthangav
▴ 110
1
vote
6
replies
561
views
count number of polymorphic sites among samples in vcf
bcftools
vcf
20 hours ago by
vaellis
• 0
1
vote
2
replies
197
views
Using Lordec to correct Nanopore DRS reads
lordec
nanopore
read-correction
21 hours ago by
baibhu1234
• 0
0
votes
1
reply
141
views
Genetic modification in mosquito sequence
gene-modification
crispr
ncbi
updated 7 hours ago by
Ram
44k • written 22 hours ago by
sugamohanasundaram
• 0
0
votes
0
replies
123
views
EU-Seq Differentially expressed transcripts
EU-Seq
Seq
nascent
RNA
23 hours ago by
Bruno
• 0
0
votes
0
replies
116
views
Job:
Seeking remote internship/job
spain
remote
europe
portugal
1 day ago by
Guilherme
• 0
0
votes
4
replies
207
views
How to interpret WebGestalt plots for GSEA and ORA?
webgestalt
gsea
ora
1 day ago by
Haad
• 0
0
votes
0
replies
91
views
News:
course - Analysis of Longitudinal Data in Biology using R (online, November 25th-28th)
R
Machine-Learning
Longitudinal-data
updated 1 day ago by
Ram
44k • written 1 day ago by
carlopecoraro2
★ 2.6k
0
votes
1
reply
113
views
PacBio RNAseq Isoseq Pipeline question
Isoseq
Pipeline
PacBio
RNAseq
updated 1 day ago by
GenoMax
146k • written 1 day ago by
evan.kransdorf
• 0
3
votes
4
replies
4.1k
views
Cellcyclescoring did not work in Seurat V5
Seurat
single-cell
updated 1 day ago by
Bastien Hervé
5.8k • written 11 months ago by
synat.keam
▴ 100
1
vote
2
replies
177
views
Getting cds files from ncbi using accession numbers
fasta
cds
ncbi
updated 1 day ago by
Ram
44k • written 1 day ago by
lily
• 0
2
votes
7
replies
713
views
SRAtoolkit --split-files output
sratoolkit
sra
fastq
updated 1 day ago by
GenoMax
146k • written 4 weeks ago by
tony_88888
• 0
0
votes
0
replies
93
views
split gamp by chromosome or extract specific regions.
vg
1 day ago by
Juhyun
• 0
4
votes
6
replies
381
views
ggplot with ORR in y axis
ggplot
9 hours ago by
Bine
▴ 80
0
votes
0
replies
101
views
Phasing haplotypes from the crosses
gatk
snps
phasing
haplotypes
1 day ago by
ayeraselvan
▴ 10
0
votes
1
reply
129
views
Extract bacterial SNP from PATRC
SNPs
genomes
PATRIC
bacterial
updated 1 day ago by
GenoMax
146k • written 1 day ago by
Jennifer
• 0
1
vote
7
replies
278
views
Gene expression at 0 in single cell experiments
seurat
single-cell
updated 1 day ago by
Ram
44k • written 1 day ago by
Gerard
▴ 10
0
votes
0
replies
103
views
Extract all protein-coding genes from TxDb.
R
Granges
IRanges
Txdb
1 day ago by
octpus616
▴ 110
0
votes
1
reply
152
views
Pre-pseudoalignment preprocessing
salmon
updated 1 day ago by
ATpoint
85k • written 2 days ago by
Nicholas
• 0
0
votes
0
replies
112
views
Job:
Postdoc in reproductive genetics, University of Gothenburg, Sweden
bioinformatics
computational-biology
genetics
postdoc
updated 1 day ago by
Ram
44k • written 1 day ago by
pol.sole.navais
• 0
8
votes
17
replies
756
views
Snakemake error
SnakeMake
updated 13 hours ago by
Michael
55k • written 2 days ago by
aUser
▴ 50
0
votes
7
replies
354
views
The BUSCO assessment of the MAKER annotation results shows a low completeness
BUSCO
MAKER
updated 19 hours ago by
Abieskawa
• 0 • written 1 day ago by
mut
• 0
0
votes
0
replies
127
views
Job:
Assistant Professor of Computational Molecular Biology
molecular
biology
1 day ago by
UCSDBioSci
▴ 30
0
votes
0
replies
133
views
Skilled occupation list austrlia
Australia
2 days ago by
anasjamshed
▴ 140
0
votes
1
reply
141
views
T2T assembly supporting tools
telomere
t2t
assembly
genome
updated 1 day ago by
biofalconch
★ 1.3k • written 2 days ago by
eva_u
▴ 10
8
votes
9
replies
623
views
Is a SLURM job array submission suitable for parallelizing multiple FASTQ file downloads?
parallel-computing
HPC
SLURM
FASTQ
updated 6 hours ago by
Dave Carlson
★ 1.9k • written 2 days ago by
kalavattam
▴ 280
0
votes
1
reply
144
views
Cut&Run: E-coli spike-in
normalization
cut-and-run
updated 2 days ago by
Ram
44k • written 2 days ago by
kim
• 0
0
votes
0
replies
104
views
Issues using reduceSimMatrix with a custom annotation
enrichment
GO
GOsemsim
rrvgo
annotationForge
2 days ago by
daccar98
• 0
0
votes
2
replies
425
views
Perform DESeq2 with One factor with three levels vs Two factor with two levels
DESeq2
updated 2 days ago by
swbarnes2
14k • written 8 days ago by
وفاء
• 0
2
votes
7
replies
342
views
Combining two closely related bacterial annotated genomes to analyze as one pooled group
genomes
RNASeq
updated 7 hours ago by
i.sudbery
20k • written 2 days ago by
brayas13
• 0
1
vote
4
replies
764
views
nf-core/rnaseq, problem with ensembl reference
nfcore
nextflow
ensembl
rnaseq
updated 2 days ago by
Kai
• 0 • written 7 months ago by
Filip
▴ 10
0
votes
0
replies
118
views
VG STATS: 2000 Properly Paired Inquiry
samtools
variation-graph
sequencing
vg
updated 2 days ago by
Ram
44k • written 2 days ago by
abdelf6
• 0
0
votes
0
replies
116
views
Requesting help with Edge Weighted Graph Creation (Cytoscape)
Cytoscape
WGCNA
2 days ago by
Guntaas
• 0
0
votes
0
replies
109
views
Database for peptide drugs
database
2 days ago by
Jiayi Yang
• 0
0
votes
1
reply
322
views
News:
Online Workshop - A Practical Introduction to NGS Data Analysis (December 9-11, 2024)
Workshop
Variant-Calling
RNA-Seq
Illumina
DNA-Seq
2 days ago by
ecSeq Bioinformatics
• 0
119,419 results • Page
1 of 2389
Recent Votes
A notebook for checking relatedness and X heterozygosity from sequencing data
A notebook for checking relatedness and X heterozygosity from sequencing data
[GNOMAD v2]How to count the number of heterozygous individuals
Comment: Extract gene_id and protein_id from .gtf file to create a list with them
Comment: ggplot with ORR in y axis
A: What Are The Most Reliable Normalization Methods For Microarrays?
A: What Are The Most Reliable Normalization Methods For Microarrays?
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Comment: A notebook for checking relatedness and X heterozygosity from sequencing data
by
Jeremy Leipzig
22k
What would this return for individuals with Klinefelter syndrome i.e. XXY?
Comment: Extract gene_id and protein_id from .gtf file to create a list with them
by
Eduardo Oñate
• 0
Thanks! I resolve it using a different command line and sublime text to edit the text. I use this command line: grep -w 'CDS' GCF_0030862…
Comment: Extract gene_id and protein_id from .gtf file to create a list with them
by
GenoMax
146k
You can use `AGAT` toolkit to do this properly: https://agat.readthedocs.io/en/latest/tools/agat_sp_extract_attributes.html
Comment: I Built a Simple Website to Help Researchers find Research Grants
by
GenoMax
146k
Perhaps this tool is meant to be for non-US locations. NIH makes grant database available for similar purpose here: https://report.nih.gov/
Comment: Is a SLURM job array submission suitable for parallelizing multiple FASTQ file d
by
Dave Carlson
★ 1.9k
I actually more-or-less agree with you. I suspect that the next HPC system we set up will probably go from an "opt-in" to "opt-out" approa…
Comment: Genetic modification in mosquito sequence
by
Ram
44k
Please read: https://www.biostars.org/p/75548/ and modify your post so your problem is clear and your post is readable.
Comment: Combining two closely related bacterial annotated genomes to analyze as one pool
by
i.sudbery
20k
I talked to someone who does this sort of thing in GroupA, and they said that sometimes the strains are close enough that you can use somet…
Comment: Is a SLURM job array submission suitable for parallelizing multiple FASTQ file d
by
kalavattam
▴ 280
This seems like an appropriate answer, along with the comment below. If you’d prefer to add this as a comment instead of a reply, I’d be ha…
Comment: Is a SLURM job array submission suitable for parallelizing multiple FASTQ file d
by
dariober
15k
> This setup just assumes that most jobs are highly parallel and will be using the full set of resources of one or more nodes. Fair enough…
Answer: Indexing a 2.6GB Plant Genome Using STAR (genomeGenerate Mode) Terminated Due to
by
colindaven
6.8k
If you have 3million contigs it is not going to be possible to use STAR or any other aligner, it is just too fragmented. I once had a plant…
Comment: I Built a Simple Website to Help Researchers find Research Grants
by
bitsofadventures
▴ 40
Thank you for the feedback! The tool is still a work in progress. Right now, it identifies funding sources frequently cited in papers with …
Comment: Basic de novo assembly of plant genome
by
Lemonhope
▴ 10
Hey, Lemonhope here. So maybe I was unclear in my original post, sorry, it was a bit late when I posted! My goal is to simply have a set …
Comment: ggplot with ORR in y axis
by
Bine
▴ 80
Yes this column is in metadata.
Comment: Basic de novo assembly of plant genome
by
Lemonhope
▴ 10
Hey So maybe I was unclear, sorry, it was a bit late when I posted! My goal is to simply have a set of scaffolds that could be used for b…
Comment: Basic de novo assembly of plant genome
by
Lemonhope
▴ 10
I do have an idea of the genome size yes, but I am unaware of whether the species is able to self or not. Thank you for the recommendatio…
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