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News: University of Connecticut Single Cell RNA-seq Workshop December 12-15, 2023
expression singlecell rnaseq
2 hours ago by mia.nahom ▴ 10
773
votes
164
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129k
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107 follow
News: The Biostar Handbook. A bioinformatics e-book for beginners.
training handbook
updated 9 weeks ago by 2.3k • written 7.0 years ago by 99k
0
votes
0
replies
68
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News: Online course: Introduction to Python, February 12th-March 11th, 2024
python courses
2 days ago by Sole • 0
0
votes
1
reply
136
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News: Course: Genome Assembly and Annotation
Biodiversity Genome-Assembly Genome-Annotation Long-reads
updated 2 days ago by 41k • written 6 days ago by ★ 2.4k
0
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0
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189
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News: GWAS course
R GWAS
updated 2 days ago by 41k • written 13 days ago by ★ 2.4k
3
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0
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149
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News: NCBI BLAST+ 2.2.15 now available for download
NCBI Taxonomy BLAST
15 days ago by PeterC_NCBI ▴ 370
0
votes
0
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131
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News: Course - Introduction to R Shiny
R Data-Visualisation Shiny
updated 2 days ago by 41k • written 15 days ago by ★ 2.4k
0
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0
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129
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News: Online expert taught RNA-Seq workshop
workshop
15 days ago by fturner ▴ 10
0
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0
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138
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News: Course - RNAseq in non-model organisms
Pacbio RNA-seq Nanopore
updated 2 days ago by 41k • written 16 days ago by ★ 2.4k
0
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0
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191
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News: Next-Generation Sequencing Data Analysis: A Practical Introduction (Nov 29 – Dec 1 in Munich, Germany)
RNAseq DNAseq NGS Workshop
19 days ago by Lars ★ 1.0k
0
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0
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172
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News: Course - Computational Tumor Evolution
Tumor-Evolution Cancer-Genomics
updated 2 days ago by 41k • written 19 days ago by ★ 2.4k
0
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3
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1.0k
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News: :: FINAL CALL :: A Practical Introduction to NGS Data Analysis (Nov 29 - Dec 1, 2023 in Munich, Germany) - only 2 seats left
DNA-Seq NGS RNA-Seq Workshop
22 days ago by David Langenberger 10k
0
votes
0
replies
163
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News: Course: Genome Assembly using Oxford Nanopore Sequencing
Genome-Assembly Nanopore
updated 2 days ago by 41k • written 24 days ago by ★ 2.4k
0
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0
replies
161
views
News: Genemod - Lab Management Software
lab-management-software research
updated 23 days ago by 41k • written 24 days ago by • 0
1
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0
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184
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News: course - Advanced Python Programming
Python-Programming
updated 28 days ago by 41k • written 28 days ago by ★ 2.4k
3
votes
2
replies
2.2k
views
News: New ebook: From cell line to Command line to learn computational biology
unix snakemake computational-biology RNA-seq
15 days ago by Ming Tommy Tang ★ 3.6k
0
votes
0
replies
169
views
News: GWAS course
R GWAS
updated 28 days ago by 41k • written 28 days ago by ★ 2.4k
0
votes
0
replies
160
views
News: Course - Introduction to Bayesian Data Analysis
R Statistics Bayesian Regression-Modeling
updated 2 days ago by 41k • written 4 weeks ago by ★ 2.4k
3
votes
0
replies
266
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News: gnomAD v4 released
gnomad
5 weeks ago by Pierre Lindenbaum 158k
0
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0
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188
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News: Course - Introduction to Machine Learning in R
R Statistical-Learning Omics Machine-Learning
updated 5 weeks ago by 41k • written 5 weeks ago by ★ 2.4k
0
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0
replies
216
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News: Spatial Omics and Multiplexed Image Analysis course
Spatial-Omics Multiplexed-Image-Analysis
updated 5 weeks ago by 41k • written 5 weeks ago by ★ 2.4k
0
votes
0
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197
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News: Virtual de novo RNA-seq (transcriptomics) Workshop: November 13-16, 2023
workshop RNA-seq transcriptomics
updated 5 weeks ago by 41k • written 5 weeks ago by ▴ 10
1
vote
0
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212
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News: course - Comparative Genomics
Comparative-Genomics
updated 5 weeks ago by 41k • written 5 weeks ago by ★ 2.4k
0
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0
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255
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News: Online course Python Machine Learning in Biology, November 16, 2023
machine-learning python course
updated 5 weeks ago by 41k • written 5 weeks ago by • 0
0
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0
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218
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News: RNA-Seq Data Analysis Workshop (March 11 - 14, 2024 in Berlin, Germany)
NGS RNA-Seq Workshop
5 weeks ago by David Langenberger 10k
122
votes
44
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10k
views
24 follow
News: Help Make Biostar Better! Add Your Feedback, Opinions And Suggestions.
meta biostars
updated 5 weeks ago by 41k • written 11.0 years ago by 99k
0
votes
0
replies
259
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News: Bioinformatics Phoenix
web-server
updated 6 weeks ago by 41k • written 6 weeks ago by • 0
1
vote
0
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197
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News: Course - Developing R/Bioconductor Packages for Genomics
R package-development Genomics Bioconductor
updated 6 weeks ago by 41k • written 6 weeks ago by ★ 2.4k
0
votes
0
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176
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News: Course -Metabarcoding in Microbial Ecology
R Qiime2 Microbial-Ecology Metabarcoding
updated 7 weeks ago by 41k • written 7 weeks ago by ★ 2.4k
0
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0
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218
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News: Become a Bioinformatics Pro: Easy Understanding Starts Here
Structural-Bioinformatics
updated 7 weeks ago by 41k • written 7 weeks ago by • 0
0
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0
replies
220
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News: Course - Flow Cytometry analysis with R/Bioconductor
R Flow-Cytometry Bioconductor
updated 7 weeks ago by 41k • written 7 weeks ago by ★ 2.4k
0
votes
1
reply
922
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News: FINAL CALL - Workshop - Single-Cell RNA-Seq Data Analysis: A Practical Introduction (November 8-10, 2023 in Berlin)
workshop RNA-Seq scRNA-Seq single-cell
7 weeks ago by David Langenberger 10k
0
votes
1
reply
653
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News: FINAL CALL: Online Course - A Practical Introduction to NGS Data Analysis - October 23-25, 2023
DNA-seq Workshop RNA-seq
8 weeks ago by David Langenberger 10k
0
votes
0
replies
269
views
News: Course - Metabolomics in R/Bioconductor
R Data-Analysis Metabolomics Bioconductor
updated 8 weeks ago by 41k • written 8 weeks ago by ★ 2.4k
13
votes
9
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2.4k
views
7 follow
News: Inviting NEW Biostars moderators to join Biostars slack channel
slack moderator
8 weeks ago by GenoMax 136k
0
votes
0
replies
239
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News: Cellosaurus release 47 is available
cellosauraus cell-line biocuration knowledgebase
updated 8 weeks ago by 41k • written 8 weeks ago by ▴ 110
0
votes
0
replies
203
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News: Course: Seascape Genomics in R course
R GEA Seascape-Genomics Adaptation-Genomics
updated 9 weeks ago by 41k • written 9 weeks ago by ★ 2.4k
0
votes
0
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217
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News: Course :MACHINE LEARNING - A HANDS-ON INTRODUCTION IN R
R Statistical-Learning Omics Machine-Learning
updated 9 weeks ago by 41k • written 9 weeks ago by ★ 2.4k
0
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0
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277
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News: Course - Gene Set Enrichment Analysis in R/Bioconductor
Gene-Set-Enrichment-Analysis GSEA R Genomics Bioconductor
updated 8 weeks ago by 41k • written 9 weeks ago by ★ 2.4k
0
votes
0
replies
231
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News: New NCBI Datasets APIs to Replace Old Ones
NCBI API Datasets
10 weeks ago by PeterC_NCBI ▴ 370
0
votes
0
replies
245
views
News: RADseq data analysis course
RADseq Phylogenomics Stacks Population-Genomics
7 weeks ago by carlopecoraro2 ★ 2.4k
0
votes
1
reply
369
views
News: EMBL-EBI virtual course | Introduction to RNA-seq and functional interpretation
RNA-seq
updated 10 weeks ago by 41k • written 10 weeks ago by • 0
1
vote
0
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298
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News: Online Training - Bioinformatics Pipeline Development with Nextflow (November 15-17, 2023)
nextflow automation pipeline development
10 weeks ago by David Langenberger 10k
2
votes
1
reply
352
views
News: Successful NCBI NIAID Codeathon on VCF Files in SARS-CoV-2 Genomics
NCBI Codeathon
updated 10 weeks ago by 10k • written 10 weeks ago by ▴ 370
0
votes
0
replies
258
views
News: Research Breakthrough in Identifying Viral Escape Mutations for Improved Therapeutic Design
sequence-analysis sars-cov-2 spike-protein
updated 10 weeks ago by 41k • written 10 weeks ago by • 0
0
votes
0
replies
250
views
News: Course: Data Manipulation and Visualisation with Python
Python Data-Visualization Data-Manipulation
updated 11 weeks ago by 41k • written 11 weeks ago by ★ 2.4k
0
votes
2
replies
743
views
News: The Practice of RADseq: Population Genomics Analysis with Stacks (RADS02) Early bird deadline approaching - 20th September
population-genomics radseq stacks
updated 11 weeks ago by ★ 1.4k • written 11 weeks ago by ▴ 110
0
votes
0
replies
252
views
News: Course - GLMMs in R
GLMM Mixed-Models
updated 11 weeks ago by 41k • written 11 weeks ago by ★ 2.4k
0
votes
0
replies
255
views
News: Introduction to Nextflow (2 seats left)
Nextflow Workflow Reproducibility
updated 11 weeks ago by 41k • written 11 weeks ago by ★ 2.4k
0
votes
0
replies
264
views
News: Genomic Prediction course
Genomic-Prediction GWAS
updated 8 weeks ago by 41k • written 11 weeks ago by ★ 2.4k
1,000 results • Page 1 of 20
Recent Votes
A: difference between GSEA and Gene Ontology
Answer: Does the Minion demultiplex when basecalling?
the difference between the positions called by somatic caller (MuTect2) and the position called by germline caller (UnifiedGenotyper)?
A: Extract somatic mutations and germline mutations from variant calling files?
C: visualizing mutational data using Maftools for reference genome hg19
Answer: Ambient RNA removal method that generates whole (integer) counts
Answer: Ambient RNA removal method that generates whole (integer) counts
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Scholar to jared.andrews07 ★ 16k
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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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