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6 follow
News: Announcing bioSyntax: Syntax highlighting for biological files
computational-biology
updated 6 months ago by 41k • written 5.9 years ago by ▴ 170
8
votes
8
replies
2.7k
views
News: Coronavirus Genome Analysis: a new volume in the Biostar Handbook
biostar-handbook education
updated 6 months ago by 41k • written 3.8 years ago by 99k
2
votes
6
replies
2.7k
views
News: Master in integrated systems biology / Luxembourg
systems-biology Masters-course
updated 6 months ago by 41k • written 6.4 years ago by ▴ 130
1
vote
0
replies
2.7k
views
News: Genomic Data Visualization and Interpretation Workshop
Bioconductor ggplot GenVisR RNA-Seq R
updated 6 months ago by 41k • written 6.4 years ago by ★ 2.4k
4
votes
5
replies
2.7k
views
News: Kover will provide support via Biostars
kmer kover machine-learning
updated 8 months ago by 41k • written 7.5 years ago by ▴ 90
7
votes
1
reply
2.7k
views
News: Integrated Genome Browser version 8.3 released - new native installer
ChIP-Seq RNA-Seq igv igb
updated 20 months ago by 41k • written 8.9 years ago by ★ 2.4k
3
votes
0
replies
2.6k
views
News: SeqAhead - COST - Bioinformatics for Non-Coding RNAs: State-of-the-art Training Workshop: 30/6-3/7/2014, Athens, Greece
RNA-Seq workshop lncRNA microRNA
updated 9 months ago by 41k • written 9.6 years ago by ★ 1.3k
25
votes
7
replies
2.6k
views
6 follow
News: Who qualifies to be a bioinformatician?
resume bioinformatician vc
updated 17 months ago by 41k • written 8.6 years ago by 158k
3
votes
1
reply
2.6k
views
News: Ngs Session At Biocomp Bg 2012 Conference!
next-gen-sequencing
updated 9 months ago by 41k • written 11.6 years ago by ▴ 50
1
vote
0
replies
2.6k
views
News: Bioconductor/R Workshop For High-Throughput Data Analysis (Web Version)
microarray bioconductor online next-gen
updated 9 months ago by 41k • written 10.2 years ago by ▴ 10
3
votes
0
replies
2.6k
views
News: Bioinformatics Specialization on Coursera
MOOCs Education
updated 14 months ago by 41k • written 8.3 years ago by ▴ 50
6
votes
0
replies
2.6k
views
News: New Methods Section In Plos Computational Biology
publications plos
updated 9 months ago by 41k • written 10.8 years ago by 18k
8
votes
1
reply
2.6k
views
News: An Interesting Article On Bioinformatics Education With Some Press For Biostar
meta biostars
updated 9 months ago by 41k • written 10.4 years ago by 11k
2
votes
1
reply
2.6k
views
News: Workshop: Programming For Evolutionary Biology
programming RNA-seq
updated 9 months ago by 41k • written 10.9 years ago by 10k
2
votes
2
replies
2.6k
views
News: ENCODE 2015: Research Applications and Users Meeting
workshop mouse-encode encode
updated 8 months ago by 41k • written 8.5 years ago by 35k
20
votes
3
replies
2.6k
views
News: Nature Comment: Core services: Reward bioinformaticians
career-path
updated 17 months ago by 41k • written 8.7 years ago by ★ 2.2k
7
votes
4
replies
2.6k
views
News: Boston Ma Us Area Folks: Software Carpentry Workshop For Women In Science Coming Up
python training
updated 9 months ago by 41k • written 10.7 years ago by 11k
13
votes
8
replies
2.6k
views
News: NCBI is going to eliminate GI identifiers
ncbi GI
updated 8 months ago by 41k • written 7.7 years ago by ★ 2.9k
6
votes
2
replies
2.5k
views
News: RNA-Seq Data Analysis Workshop in Berlin, Germany (full)
NGS RNA-Seq workshop
updated 7 months ago by 41k • written 7.0 years ago by 10k
2
votes
0
replies
2.5k
views
News: Primer-BLAST can now design primers for a group of related target sequences!
primer-blast blast
updated 9 months ago by 41k • written 3.2 years ago by 136k
3
votes
6
replies
2.5k
views
News: Brief Getting Started with Broad Firecloud tutorial posted
RNA-Seq
updated 8 months ago by 41k • written 7.4 years ago by 26k
5
votes
1
reply
2.5k
views
News: Advanced Course: R programming and development 15-16. January 2015 (Thursday-Friday), EMBL Heidelberg
programming course R
updated 9 months ago by 41k • written 9.1 years ago by ★ 1.7k
2
votes
2
replies
2.5k
views
News: Interview Dealing with RADseq data: some tips from our instructors
NGS RADseq
updated 6 months ago by 41k • written 6.1 years ago by ★ 2.4k
10
votes
4
replies
2.5k
views
News: Ensembl 77 is out
ensembl
updated 22 months ago by 41k • written 9.2 years ago by 23k
3
votes
2
replies
2.5k
views
News: Samtools/htslib v1.2 released
htslib samtools bcftools
updated 8 months ago by 41k • written 8.8 years ago by 104k
3
votes
1
reply
2.5k
views
News: The 2014 Nucleic Acids Research Database Issue
database
updated 9 months ago by 41k • written 9.9 years ago by 158k
15
votes
4
replies
2.5k
views
News: Call For Nominations: 2013 Benjamin Franklin Award
benjamin-franklin-award award
updated 9 months ago by 41k • written 10.8 years ago by 158k
2
votes
1
reply
2.5k
views
News: RNAseq data analysis with R/ Bioconductor - ONLINE COURSE
R RNA-Seq Bioconductor
updated 6 months ago by 41k • written 3.7 years ago by ★ 2.4k
0
votes
5
replies
2.5k
views
News: Workshop: Data manipulation and visualization with Python
next-gen genome SNP sequence
updated 7 months ago by 41k • written 7.1 years ago by ★ 2.4k
2
votes
0
replies
2.5k
views
News: Summer School in Bioinformatics & NGS Data Analysis
NGS summer-school ChIP-seq RNA-seq DNA-seq
updated 8 months ago by 41k • written 7.5 years ago by 4.2k
10
votes
7
replies
2.5k
views
News: Linux for Biologists e-book (free to read online)
linux python galaxy conda virtual-machine
2.2 years ago by vimalkvn ▴ 320
1
vote
1
reply
2.5k
views
News: Benefits of DNA Testing - Xcode Life sciences provides preventive healthcare solution
personal-genomics genetic-testing
updated 11 months ago by 41k • written 8.5 years ago by • 0
0
votes
2
replies
2.5k
views
News: PART FUNDED SCHOLARSHIPS - Coding, data management, and Shiny applications using RStudio for evolutionary biologists and ecologists - May 2017
Rstudio R Shiny
updated 6 months ago by 41k • written 6.7 years ago by ▴ 110
0
votes
0
replies
2.5k
views
News: Apply to Penn State's Online Graduate Certificate in Applied Bioinformatics
learn-bioinformatics-online genome-sequencing
updated 16 months ago by 41k • written 8.0 years ago by ▴ 10
2
votes
0
replies
2.5k
views
News: Connecting NGS Researcher Directly to Data Analysis Provider: New Genohub Service Launched
NGS-data-analysis bioinformatics-services
updated 9 months ago by 41k • written 9.6 years ago by ▴ 640
6
votes
0
replies
2.5k
views
News: http://crackingthebiocode.github.io : Profiles of Computational Biologists & Bioinformaticians
career
updated 9 months ago by 41k • written 9.2 years ago by 158k
1
vote
0
replies
2.5k
views
News: Course: Gene set enrichment and pathway analysis in R . Berlin 12-16 March 2018
Pathway-Analysis R Gene
updated 6 months ago by 41k • written 6.1 years ago by ★ 2.4k
1
vote
1
reply
2.5k
views
News: R package PopGenome: http://popgenome.weebly.com/
R population-genomics popgenome VCF
updated 8 months ago by 41k • written 8.6 years ago by ▴ 50
0
votes
0
replies
2.5k
views
News: Thinking of learning Linux/Python?
genome snp next-gen-sequencing
updated 8 months ago by 41k • written 7.2 years ago by ★ 2.4k
8
votes
0
replies
2.5k
views
News: De Novo Genome Assembly Using Next-Generation Sequence Data (8 - 10 February 2016)
Assembly Workshop DNA-Seq
updated 15 months ago by 41k • written 8.2 years ago by 10k
6
votes
1
reply
2.5k
views
News: FastQC Version 0.11.1 released
genome next-gen-sequencing
updated 9 months ago by 41k • written 9.5 years ago by ★ 2.2k
3
votes
0
replies
2.4k
views
News: Workshop: GATK Best Practices for Variant Discovery, Edinburgh, 17-19 July 2017
GATK workshop variant-calling
updated 6 months ago by 41k • written 6.7 years ago by ★ 3.7k
7
votes
5
replies
2.4k
views
News: Physalia-Course: Introduction to Linux and workflows for biologists (Berlin)
next-gen Unix Assembly alignment
updated 6 months ago by 41k • written 6.7 years ago by ★ 2.4k
6
votes
2
replies
2.4k
views
News: Interested in de novo transcriptome assembly using Trinity? Check out our interview to Brian Haas
alignment RNA-Seq
updated 7 months ago by 41k • written 6.8 years ago by ★ 2.4k
3
votes
1
reply
2.4k
views
News: Variathon V0.1 - 2013 - Comparing Existing Or New Pipelines For Variant Calling In Terms Of Accuracy And Efficiency
ngs conference
updated 9 months ago by 41k • written 10.8 years ago by 158k
13
votes
9
replies
2.4k
views
7 follow
News: Inviting NEW Biostars moderators to join Biostars slack channel
slack moderator
8 weeks ago by GenoMax 136k
1
vote
0
replies
2.4k
views
News: Genetic data analysis/exploration using R
RNA-Seq snp R data-analysis
updated 7 months ago by 41k • written 6.7 years ago by ▴ 110
18
votes
3
replies
2.4k
views
News: LAST CALL: Next-Generation Sequencing Data Analysis: A Practical Introduction (Frankfurt, Germany) - 2 seats left
DNA-Seq NGS Workshop Variant-Calling
updated 17 months ago by 41k • written 6.8 years ago by 10k
0
votes
0
replies
2.4k
views
News: Total RNA Commercial Kit Comparison Study
microarray NGS RNA-Seq qPCR
updated 9 months ago by 41k • written 9.0 years ago by ▴ 40
0
votes
0
replies
2.4k
views
News: Nature Genetics - DNA Methyloma Analysis in Burkitt and follicular lymphomas
workshop NGS epigenetics epigenomics
updated 24 months ago by 41k • written 8.2 years ago by 10k
1,000 results • Page 4 of 20
Recent Votes
Comment: Annotation Visualization IGV
Comment: Annotation Visualization IGV
Answer: Execute R command on specific termimal
Answer: Where can I get a list of SNPs mapping overlapping genes in humans?
Comment: How do I know how much memory to use when piping to with BBMap suite (OutOfMemor
A: difference between GSEA and Gene Ontology
Answer: Does the Minion demultiplex when basecalling?
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Popular Question to samreen.jasvi • 0
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Recent Replies
Comment: Resolving over clustered NGS with Q-scores by sam.himes92 • 0
The system that we used was [Aviti][1]. Our sequencing core was the one who quantified the loading/library concentration. Sorry I don't hav…
Comment: Where can I get a list of SNPs mapping overlapping genes in humans? by Alex Reynolds 35k
I modified the answer with an approach for that use case.
Comment: Where can I get a list of SNPs mapping overlapping genes in humans? by Ram 41k
OP is looking for overlapping genes - genes with presumably different gene IDs that share some loci. I think the `genes.bed` creation logic…
Comment: Where can I get a list of SNPs mapping overlapping genes in humans? by Alex Reynolds 35k
Note: The file `snps.bed` will be very large. You'll need sufficient disk space for this step.
Answer: Where can I get a list of SNPs mapping overlapping genes in humans? by Alex Reynolds 35k
Given files `genes.bed` and `snps.bed`, you could do something like: ``` $ bedmap --echo --echo-map-id --delim '\t' genes.bed snps.bed > a…
Answer: How to add exon annotations to genome annotation by alex.zaccaron ▴ 380
You can use [AGAT][1] to process your annotation file to add the missing exons. I believe `agat_convert_sp_gxf2gxf.pl -g no_exons.gff -o wi…
Comment: Annotation Visualization IGV by Pierre Lindenbaum 158k
and you got answer that should be validate (green tick), or people asked you questions but got no answers.
Comment: Annotation Visualization IGV by awhale01 • 0
Correct I have asked those questions before.
Comment: Annotation Visualization IGV by Pierre Lindenbaum 158k
you asked questions before: review, comment and/or validate them please: https://www.biostars.org/p/9530777/ ; https://www.biostars.org/p/9…
Comment: Ambient RNA removal method that generates whole (integer) counts by EK • 0
Thanks, Jared. Sounds like rounding counts is the simplest approach for now. :)
Comment: Resolving over clustered NGS with Q-scores by Trivas ★ 1.5k
Could you tell us which sequencer you used, how you quantified your library size and concentration, and what your loading concentration was…
Comment: Resolving over clustered NGS with Q-scores by sam.himes92 • 0
I should have mentioned, we ran both Read 1 and 2 well past the points of interest. For each read we ran 75 cycles.
Answer: Resolving over clustered NGS with Q-scores by Trivas ★ 1.5k
It might be because Illumina recommends 26 cycles for Read 1: https://knowledge.illumina.com/instrumentation/general/instrumentation-genera…
Comment: Resolving over clustered NGS with Q-scores by sam.himes92 • 0
Yes at 5%.
Comment: Resolving over clustered NGS with Q-scores by ATpoint 78k
Has phiX been spiked in to increase nucleotide diversity.
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