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13
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2
replies
1.2k
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News: Thank you Biostars!
meta
updated 2 days ago by 39k • written 4.1 years ago by ▴ 140
10
votes
4
replies
1.5k
views
News: 3rd Berlin Summer School in NGS Data Analysis (2 seats just became available)
NGS RNA-Seq DNA-Seq
updated 6 days ago by 39k • written 4.4 years ago by 9.9k
8
votes
0
replies
1.1k
views
News: Final Call - Hands-On RNA-Seq Data Analysis Workshop - only 2 seats left
data-analysis RNA-Seq workshop
updated 17 hours ago by 39k • written 3.9 years ago by 9.9k
6
votes
0
replies
2.1k
views
News: Bioinformatics internships with Google Summer of Code 2019
intern Ensembl GSOC
updated 6 days ago by 39k • written 4.3 years ago by 23k
6
votes
2
replies
901
views
News: Temporarily reduced functionality of Ensembl and Ensembl Genomes
Ensembl
updated 6 days ago by 39k • written 4.3 years ago by ★ 2.2k
6
votes
1
reply
2.6k
views
News: "Oxford University Press to Publish NAR Genomics and Bioinformatics"
journal
updated 2 days ago by 39k • written 4.1 years ago by 154k
5
votes
3
replies
1.3k
views
News: Top GitHub repos for biomedicine
open-source software GitHub
updated 6 days ago by 39k • written 4.4 years ago by ▴ 50
5
votes
2
replies
723
views
News: The precisionFDA BioCompute Object App-a-thon has been extended to October 18!
BioCompute challenge
updated 14 hours ago by 39k • written 3.9 years ago by ▴ 70
4
votes
0
replies
1.0k
views
News: Workshop for genomic data visualization and interpretation
R RNA-Seq ggplot2 genomics
updated 6 days ago by 39k • written 4.5 years ago by 19k
3
votes
1
reply
949
views
News: Results are now available for the precisionFDA CDRH Biothreat Challenge!
NGS metagenomics FDA biothreat
updated 6 days ago by 39k • written 4.3 years ago by ▴ 60
3
votes
2
replies
854
views
News: BETA Testing Opportunity for new RNA-seq data analysis tool
beta-testing RNA-seq multi-omics ngs
updated 6 days ago by 39k • written 4.4 years ago by • 0
3
votes
1
reply
810
views
News: Results are now available for the precisionFDA NCI-CPTAC Multi-omics Enabled Sample Mislabeling Correction Challenge!
precisionFDA NCI challenge algorithm multi-omics
updated 6 days ago by 39k • written 4.3 years ago by ▴ 60
3
votes
1
reply
796
views
News: Do you want to learn how to analyze your genomic data using R and Bioconductor?
Genomics R Bioconductor
updated 13 hours ago by 39k • written 3.9 years ago by ★ 2.3k
3
votes
1
reply
842
views
News: Course - Genomics with R and Bioconductor - Berlin
R Bioconductor
updated 1 day ago by 39k • written 3.9 years ago by ★ 2.3k
3
votes
1
reply
686
views
News: PrecisionFDA has won a FedHealth IT award!!
platform cloud-based precision-medicine award
updated 1 day ago by 39k • written 4.0 years ago by ▴ 150
3
votes
0
replies
1.3k
views
News: Analysis of single cell RNA-seq data - Berlin 23 -27 March 2020
scRNA-seq RNA-Seq
updated 17 hours ago by 39k • written 3.9 years ago by ★ 2.3k
2
votes
2
replies
772
views
News: Interested in Machine Learning?
deep-learning machine-learning
updated 2 days ago by 39k • written 4.1 years ago by ★ 2.3k
2
votes
0
replies
880
views
News: Summer Courses @ Edinburgh Genomics
workshop training courses python RNA-Seq
updated 1 day ago by 39k • written 4.0 years ago by ▴ 40
2
votes
0
replies
838
views
News: Speciation Genomics course in Canada this September
snp R genome
updated 6 days ago by 39k • written 4.2 years ago by ★ 2.3k
2
votes
0
replies
860
views
News: Registration open for Galaxy Community Conference (GCC) 2019
galaxy
updated 2 days ago by 39k • written 4.2 years ago by 103k
2
votes
0
replies
1.5k
views
News: Call for Abstracts: BOSC 2019: Bioinformatics Open Source Conference
BOSC Conference Open-Source
updated 2 days ago by 39k • written 4.2 years ago by ★ 2.2k
2
votes
0
replies
867
views
News: Metagenomics and Metabarcoding Course @ Edinburgh Genomics
metagenomics metabarcoding course workshop
updated 14 hours ago by 39k • written 3.9 years ago by ▴ 40
2
votes
0
replies
737
views
News: The BioCompute Object App-a-thon is now live!
app-a-thon pipeline precisionFDA
updated 2 days ago by 39k • written 4.1 years ago by ▴ 150
2
votes
1
reply
1.4k
views
News: Meet Dr. Giovanni Marco Dall'Olio
NGS training RNA-Seq
updated 2 days ago by 39k • written 4.2 years ago by 9.9k
2
votes
0
replies
916
views
News: #NGSchool2019: Machine Learning for Biomedicine
ngschool workshop training summer-school next-gen
updated 2 days ago by 39k • written 4.1 years ago by ▴ 290
2
votes
0
replies
2.6k
views
News: 2nd Edition of the Biostar Handbook. New online course starts now.
biostar-handbook
updated 6 days ago by 39k • written 4.4 years ago by 98k
2
votes
0
replies
775
views
News: Interested in learning more about GWAS? Course in Canada this September
GWAS pipeline
updated 17 hours ago by 39k • written 3.9 years ago by ★ 2.3k
2
votes
0
replies
718
views
News: Bioinformatic courses in Canada (Quebec City) this September
Unix Genomics GWAS R Python
updated 13 hours ago by 39k • written 3.9 years ago by ★ 2.3k
2
votes
0
replies
873
views
News: Introduction to GWAS Workshop- Canada 9-13 September 2019
GWAS
updated 1 day ago by 39k • written 4.0 years ago by ★ 2.3k
2
votes
0
replies
1.3k
views
News: UCSC Genome Browser JSON API
ucsc json api
updated 1 day ago by 39k • written 3.9 years ago by 154k
2
votes
0
replies
664
views
News: Course: RNA-seq Analyses in non-model organisms (Berlin 11-15 November 2019)
gene RNA-Seq next-gen
updated 1 day ago by 39k • written 4.0 years ago by ★ 2.3k
2
votes
0
replies
821
views
News: Course: Approaches and Computational tools for CRISPR Genome editing
Genome-Editing CRISPR
updated 1 day ago by 39k • written 3.9 years ago by ★ 2.3k
2
votes
0
replies
844
views
News: GWAS course in Canada
GWAS
updated 6 days ago by 39k • written 4.3 years ago by ★ 2.3k
2
votes
0
replies
608
views
News: Speciation Genomics course in Canada (September 2019)
R SNP next-gen
updated 1 day ago by 39k • written 3.9 years ago by ★ 2.3k
2
votes
1
reply
755
views
News: Gene set enrichment and pathway analysis in HT data
next-gen-sequencing RNA-Seq
updated 6 days ago by 39k • written 4.3 years ago by ★ 2.3k
2
votes
0
replies
1.6k
views
News: Course - Metabolomics - Berlin, 25-29 November 2019
Metabolomics R Bioconductor
updated 1 day ago by 39k • written 3.9 years ago by ★ 2.3k
2
votes
7
replies
1.4k
views
News: Beyond pest control: What can we learn from parasites?
docking heme parasitism in-silico
updated 6 days ago by 39k • written 4.2 years ago by 52k
1
vote
2
replies
888
views
News: Sage Bionetworks is seeking researchers and data scientists to participate in software user research!
research software
updated 6 days ago by 39k • written 4.3 years ago by ▴ 30
1
vote
2
replies
1.5k
views
News: Webinar: Generating interpretable maps of single cell chromatin accessibility and RNA-seq datasets with Similarity Weighted Nonnegative Embedding
scRNAseq webinar rna-seq single-cell
updated 2 days ago by 39k • written 4.1 years ago by ▴ 580
1
vote
0
replies
862
views
News: Genomic Data Visualization using R
R
updated 6 days ago by 39k • written 4.3 years ago by ★ 2.3k
1
vote
0
replies
636
views
News: Check out precision FDA's Featured Expert Blog from Dr. Charles Eaton
biomarker Dupytrens genetic crowd-sourcing
updated 6 days ago by 39k • written 4.3 years ago by ▴ 60
1
vote
0
replies
779
views
News: 7th Annual Mendelian Data Analysis Workshop - Learn bioinformatic tools for analysis of exome and genome sequence data for rare diseases.
sequence genome next-gen analysis
updated 6 days ago by 39k • written 4.2 years ago by ▴ 10
1
vote
0
replies
624
views
News: Course: Speciation Genomics in Canada - Quebec City, 2-6 September 2019
snp R next-gen
updated 1 day ago by 39k • written 4.0 years ago by ▴ 40
1
vote
0
replies
649
views
News: Gen3 DCF Services Webinar - Authentication, Authorization and Indexing
Gen3 Webinar
updated 6 days ago by 39k • written 4.2 years ago by ▴ 10
1
vote
0
replies
1.0k
views
News: Workshop for Comparative genomics with a focus on structural variation
genome structural-variant
updated 2 days ago by 39k • written 4.2 years ago by 9.6k
1
vote
0
replies
646
views
News: Naxatra: Advance program on RNAseq and bioinformatics
NGS hands-on-workshop RNA-Seq
updated 6 days ago by 39k • written 4.3 years ago by ★ 1.1k
1
vote
0
replies
778
views
News: Spaces left on Bioinformatics Workflows with Snakemake Course
workflow snakemake bash course
updated 2 days ago by 39k • written 4.1 years ago by ▴ 40
1
vote
0
replies
1.1k
views
News: Bioinformatic Analysis of Next Generation Sequencing Data @NIH
training RNA-Seq next-gen
updated 6 days ago by 39k • written 4.3 years ago by ▴ 130
1
vote
0
replies
610
views
News: SNAKEMAKE course in Berlin. Last places available
Python
updated 6 days ago by 39k • written 4.3 years ago by ★ 2.3k
1
vote
0
replies
652
views
News: OmicsLogic Genomics Training Program starts July 23
genome dna genomics
updated 1 day ago by 39k • written 3.9 years ago by ▴ 340
134 results • Page 1 of 3
Recent Votes
Answer: How to extract haplotype data from phased bcf files
Answer: How to extract haplotype data from phased bcf files
Comment: My kernel is killing the pairtools dedup script, how to prevent that?
Comment: ggsave() bug in ggplot2?
Comment: BioInformatics, Software
Comment: Single Cell Rna Seq Using BD Rhapsody
Comment: DP meaning in VCF files
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Scholar to Pierre Lindenbaum 154k
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Recent Replies
Comment: How to extract haplotype data from phased bcf files by Lynne-95 • 0
Thanks that worked perfectly!
Answer: How to extract haplotype data from phased bcf files by Pierre Lindenbaum 154k
use %TGT (translated genotype) $ bcftools query -f '[%CHROM %POS %TGT\n]'
Comment: convert data frame with character column to data frame with integer column by Basti ★ 1.5k
You would better give an example with values because we don't know what is in each variable so we cannot give you a precise code, but seems…
Comment: RNASeq gene labeling and mRNA filter from bulkRNA data. by ATpoint 72k
This information is annotated in GTF files. You can get them for almost every annotated species from Ensembl. There is a column `gene_bioty…
Answer: DE genes across multiple scRNAseq clusters-are they significantly enriched? by ATpoint 72k
First of all, with thousands of DEGs you might want to choose a DE framework that allows testing against a fold change threshold, such as `…
Comment: PacBio Pipeline and Tools for Variant Call by Kiran ▴ 80
Thanks a lot William, I am Clear now
Comment: The famous WGS dataset, Ashkenazi Trio? by cmdcolin ★ 3.0k
what is valuable information to you
Answer: Why weblogo of biopython doesn't work? by minakshiboruahassam • 0
The weblogo3 application is giving same file even if u run the scripts separately on python standalone or whatever. The weblogo command is …
Answer: Make a BedGraph file by rfran010 ▴ 80
I would suggest bedtools makewindows to generate your 3,000bp bins then bedtools coverage to generate fraction of repeats over your windows…
Answer: What is the best way to clean bulk RNA-seq data? by rfran010 ▴ 80
Honestly, I am a fan of visualizing to select a threshold since these can depend on the specific experiment. I would even just run standard…
Answer: Help with running ATAC using Encode pipeline by rfran010 ▴ 80
Read all instructions carefully Specifically, this info is under the "Input JSON file specification" section with details in the followin…
Answer: BioInformatics, Software by rfran010 ▴ 80
There have been some good suggestions, but it seems like you may be asking one of two questions, either (1) how to do bioinformatics? or (2…
Answer: Genome assembly statistical tools by Bryan • 0
I'll follow up what a few others have mentioned, but I like stats.sh within the BBTools package for raw assembly stats. I'll then polish my…
Comment: how to design a guide RNA by rfran010 ▴ 80
I agree this is very basic CRISPR mechanism and you'd be better off reading sites that could explain better than me. However, there is a lo…
Comment: ATAC peak-calling: same peak ID across multiple experimental conditions? by rfran010 ▴ 80
You want to use the MACS2 score columns? You can retain these with bedtools option `-c` . This will retain the score columns from any merge…
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