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News: The Biostar Handbook. A bioinformatics e-book for beginners.
training tutorial News handbook
updated 4 months ago by 970 • written 5.7 years ago by 94k
0
votes
0
replies
59
views
News: 2023 EMBL Courses and Conferences
EMBL EMBLMalaria EESImaging
7 days ago by EMBL Events • 0
0
votes
0
replies
90
views
News: Online training -Getting the most out of R
R Science analysis Data
8 days ago by carlopecoraro2 ★ 2.1k
0
votes
0
replies
91
views
News: Online training - Cancer Genomics in R
Bioinformatics Genomics Cancer R
8 days ago by carlopecoraro2 ★ 2.1k
0
votes
0
replies
89
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News: Online training - DNA methylation in plants and animals
OxfordNanopore DNAMethylation BSseq longreads PacBio
10 days ago by carlopecoraro2 ★ 2.1k
0
votes
0
replies
127
views
News: 3rd edition of the Analysis of RNA sequencing data with R/Bioconductor course.
RNAseq Bioconductor R
28 days ago by carlopecoraro2 ★ 2.1k
4
votes
1
reply
1.9k
views
News: 2014 ISCB Wikipedia Article Competition announcement
ISCB competition Wikipedia
written 8.0 years ago by ★ 2.0k
1
vote
2
replies
267
views
News: Online training - Introduction to Nextflow
Bionfirmatics Pipeline Workflow Netflow
10 days ago by carlopecoraro2 ★ 2.1k
4
votes
1
reply
204
views
News: Online Course - A Practical Introduction to NGS Data Analysis (September 26-28, 2022)
workshop ngs data-analysis
updated 5 weeks ago by 36k • written 5 weeks ago by 9.8k
0
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0
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198
views
News: Final Call! Tomorrow (7/8) is the Deadline for Phase 1 submissions of the NCTR Indel Calling from Oncopanel Sequencing Data Challenge!
oncopanel indelcalling bioinformatics
5 weeks ago by sarah_p ▴ 10
0
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0
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149
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News: Automate your NGS data analyses and create reproducible/scalable pipelines with NextFlow
pipeline Nextflow automation
6 weeks ago by David Langenberger 9.8k
0
votes
1
reply
503
views
News: Hands-On RNA-Seq Data Analysis Workshop in Leipzig, Germany (October 25-28, 2022)
RNA-Seq Transcriptomics NGS Workshop
6 weeks ago by David Langenberger 9.8k
0
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3
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561
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News: Less Than One Month Remaining until the Submission Deadline for Phase 1 of the NCTR Indel Calling from Oncopanel Sequencing Data Challenge!
oncopanel indelcalling bioinformatics
6 weeks ago by sarah_p ▴ 10
0
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0
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144
views
News: EBI Competency Hub Supporting competency-based training and professional development.
ebi carreer
7 weeks ago by Pierre Lindenbaum 148k
0
votes
0
replies
152
views
News: Introduction to Statistics in R for biologists
tydeverse R Statistics
7 weeks ago by carlopecoraro2 ★ 2.1k
1
vote
0
replies
147
views
News: Data analysis with the Tidyverse in July (18th-21st).
Visualization R Tidyverse data-analysis
updated 4 weeks ago by 36k • written 7 weeks ago by ★ 2.1k
1
vote
0
replies
127
views
News: Use your standard DNA variant caller for SNP calling in Bisulfite-Seq data
bisulfite BS-Seq methylation
7 weeks ago by David Langenberger 9.8k
0
votes
0
replies
141
views
News: online training - Data Visualization with Python
Python Data-Visualization
updated 4 weeks ago by 36k • written 7 weeks ago by ★ 2.1k
0
votes
0
replies
152
views
News: Cellosaurus release 42 is available
line cell biocuration knowledgebase database
7 weeks ago by Amos Bairoch ▴ 110
0
votes
0
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152
views
News: Online course- Reproducibility in Bioinformatics - 11-13 July
Docker Reproducibility Bioinformatics
7 weeks ago by carlopecoraro2 ★ 2.1k
0
votes
0
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192
views
News: Online statistics courses
R statistics
10 weeks ago by carlopecoraro2 ★ 2.1k
0
votes
1
reply
228
views
News: API for accessing SARS-COV-2 genomic data
rpackage sars genomics api covid
updated 10 weeks ago by 119k • written 10 weeks ago by • 0
2
votes
0
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182
views
News: UniProt: Annotation of biologically relevant ligands using ChEBI
binding protein site metal uniprot chebi
10 weeks ago by Elisabeth Gasteiger ★ 2.1k
3
votes
0
replies
212
views
News: Tutorial on SemiBin (metagenonomics binning tool). June 14 - online
metagenomics binning
updated 11 weeks ago by 119k • written 11 weeks ago by ▴ 60
0
votes
0
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133
views
News: Nanopore direct RNA Sequencing - online course
Sequencing direct Nanopore RNA
12 weeks ago by carlopecoraro2 ★ 2.1k
0
votes
0
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132
views
News: ONLINE COURSE - LINEAR MIXED MODELS IN R - September 26th-30th
Models Mixed R
12 weeks ago by carlopecoraro2 ★ 2.1k
7
votes
1
reply
313
views
News: NGSymposium - Conference in Computational Biology, 23-24.09
ML statistics conference ngschool
12 weeks ago by kzkedzierska ▴ 290
0
votes
0
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156
views
News: ONLINE course "Population genomic inference from low-coverage whole-genome sequencing data"
lcWGS Genomics Population
3 months ago by carlopecoraro2 ★ 2.1k
0
votes
0
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175
views
News: Online course - Metabarcoding in microbial Ecology
Ecology Metabarcoding Qiime2 Bioinformatics Microbial
3 months ago by carlopecoraro2 ★ 2.1k
3
votes
1
reply
251
views
News: Free web seminars related to small non-coding RNA bioinformatics
eu microRNA coding non club bioinformatics RNA small
3 months ago by laurent.guyon ▴ 60
0
votes
0
replies
164
views
News: ONLINE COURSE - RADseq data analysis using Stacks
Phylogenomics Population RADseq Genomics Stacks
3 months ago by carlopecoraro2 ★ 2.1k
0
votes
0
replies
151
views
News: Online course - Developing R/Bioconductor packages for genomics
develptment Bioconductor R Bioinformatics packages
3 months ago by carlopecoraro2 ★ 2.1k
1
vote
0
replies
264
views
News: Phase 1 of the NCTR Indel Calling from Oncopanel Sequencing Data Challenge is now live!
indelcalling oncopanel bioinformatics
3 months ago by sarah_p ▴ 10
0
votes
2
replies
364
views
News: ClusteredNR NCBI BLAST database provides faster searches and more informative BLAST results
NCBI BLAST
3 months ago by PeterC_NCBI ▴ 100
0
votes
0
replies
100
views
News: NCBI poster at Bio-IT World on the new cloud BLAST tool, ElasticBLAST
NCBI BLAST ElasticBLAST
3 months ago by PeterC_NCBI ▴ 100
1
vote
0
replies
170
views
News: DATA ANALYSIS WITH THE TIDYVERSE in July (18th-21st).
tidyverse data R analysis
3 months ago by carlopecoraro2 ★ 2.1k
0
votes
0
replies
240
views
News: Introduction to Nextflow course
Nextflow
3 months ago by carlopecoraro2 ★ 2.1k
0
votes
0
replies
184
views
News: Online Course - A Practical Introduction to NGS Data Analysis (May 16-18, 2022)
NGS RNA DNA Workshop
3 months ago by David Langenberger 9.8k
6
votes
0
replies
224
views
News: NGSchool2022: Machine Learning in Computational Biology
summer machine learning school ngschool ML statistics
3 months ago by kzkedzierska ▴ 290
0
votes
1
reply
215
views
News: Introduction to Deep Learning course
DeepLearning MachineLearning bigdata
updated 3 months ago by 21k • written 4 months ago by ★ 2.1k
2
votes
3
replies
535
views
News: Want to automate your NGS analyses and create reproducible/scalable pipelines? Join our hands-on Nextflow workshop!
nextflow NGS pipeline
3 months ago by David Langenberger 9.8k
0
votes
0
replies
657
views
News: Pre-Register for the NCTR Indel Calling from Oncopanel Sequencing Data Challenge with FDA’s National Center for Toxicological Research (NCTR) and pre…
indelcalling bioinformatics oncopanel
4 months ago by sarah_p ▴ 10
0
votes
0
replies
160
views
News: Virtual Genome Assembly Workshop : May 16-19, 2022
assembly Genome Workshop
4 months ago by singh.vijender ▴ 50
1
vote
0
replies
171
views
News: Data visualization in Python course
Data Visualization Python
4 months ago by carlopecoraro2 ★ 2.1k
0
votes
0
replies
148
views
News: Landscape Genomics in R course
LandscapeGenomics
4 months ago by carlopecoraro2 ★ 2.1k
0
votes
0
replies
171
views
News: Gene Set Enrichment Analysis in R workshop
GSE
4 months ago by carlopecoraro2 ★ 2.1k
0
votes
0
replies
152
views
News: Conservation Genomics Workshop
ConservationGenomics
4 months ago by carlopecoraro2 ★ 2.1k
0
votes
0
replies
169
views
News: A webinar about Harmony batch correction, by its author
scrna-seq single-cell rna-seq
4 months ago by Jennifer Pham ▴ 450
0
votes
1
reply
2.0k
views
News: Nature Index: Novogene is teaming up with laboratories worldwide for life sciences and human health research
Nature NGS Sequencing Bioinformatics
updated 4 months ago by 13k • written 4 months ago by ▴ 160
0
votes
1
reply
647
views
News: ::FINAL CALL:: Online Course | A Practical Introduction to NGS Data Analysis | March 30 - April 1, 2022
DNA-Seq RNA-Seq Workshop
4 months ago by David Langenberger 9.8k
223 results • Page 1 of 5
Recent Votes
Adding ggplot2 chromosome position variable
Answer: what can cause high(> 80%) spike-ins and low read count (<100 reads) in low comp
Comment: WGCNA Labeled Heatmap
gosling: import custom genome sequence
A: Go Term Mapping
Comment: Detect sex chromosomes from WGS on a bird species (with reference genome)
Answer: Trim fasta sequence names
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Recent Replies
Comment: Error PacBio SMRT Link by William Rowell ▴ 220
Please reach out to [support@pacb.com](mailto:support@pacb.com) and they'll help you out with this.
Answer: Index genome for Triticum aestivum by GenoMax 119k
Use http://ftp.ensemblgenomes.org/pub/plants/release-45/fasta/triticum_aestivum/dna_index/ to get to the index files. Most browsers have s…
Comment: MarkDuplicates gives too few reads by wormball ▴ 10
I already have REMOVE_DUPLICATES='false' . It writes file about as big as the input file, but IGV does not show most of the reads in the re…
Answer: what can cause high(> 80%) spike-ins and low read count (<100 reads) in low comp by LChart 670
My first instinct is DNAse contamination, which would impact both the input material and the spike-in. If the spike-in reads are very high,…
Comment: Any script that can produce different mutations of protein sequences at specifie by fracarb8 ▴ 810
You can use `rotkit.mutate` in pyMOL. The basic command should be `mutate(molecule,chain,resi,target,mutframe)` .
Comment: How to generate a mutation schematic diagram by Muhammad • 0
I am aware of the lollipop plots, but I am looking for a plot with this specific design
Comment: MarkDuplicates gives too few reads by GenoMax 119k
You have `remove duplicates` set to `false` so no reads should be removed.
Answer: Any script that can produce different mutations of protein sequences at specifie by Ernest Bonat ▴ 10
i know if we have any python script for this task. if you can post an example, i can look at it and provide some python code ideas how to d…
Comment: how to use mirdeep2 without a small RNA library by Beatriz • 0
Do you have any idea on what would be a good 100% in silico methodology then? Thank you for your help.
Comment: Cytoscape visualisation issue by sarah.laverty20 • 0
Hi there, That worked thanks so much! I have a secondary question: I have now made an interaction network and I am happy with the …
Answer: how to use mirdeep2 without a small RNA library by Trivas ▴ 480
Short answer: no. Small RNA-seq library prep kits have a specific chemistry to add sequencing adapters and also undergo a size selection us…
Comment: Correct way to calculate VAF (Variant allele fraction) from a VCF file by Hasib ▴ 10
Hi Prasun. So I called my somatic variants using GATK Mutect2. I have 4 individual sample VCF files which I generated using the Tumor-match…
Comment: How to use RSEM to quantify genes and transcript expression from STAR outpute fi by Ram 36k
Can you share your STAR command as well? See the STAR command line used by RSEM here: https://github.com/deweylab/RSEM/blob/master/rsem-cal…
Comment: Import a BAM file into SMRT Link by sunilthorat ▴ 30
I am using SMRT Link 6.0 for the first time. I already have Plant Genome RAW sequences data from PacBio RS II with files as under: *.ada…
Comment: CellRanger runs into error when running fastq files from SRA by GenoMax 119k
It seems clear that `fasterq-dump` should not be used with 10x data at all since others have reported similar issues. You could try emaili…
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