Anton Nekrutenko
Contributions
The following list includes only slides and tutorials where the individual or organisation has been added to the contributor list. This may not include the sum total of their contributions to the training materials (e.g. GTN css or design, tutorial datasets, workflow development, etc.) unless described by a news post.
Editorial Roles
This contributor has taken on additional responsibilities as an editor for the following topics. They are responsible for ensuring that the content is up to date, accurate, and follows GTN best practices.
- Topic: Assembly
- Topic: Variant Analysis
- Learning Pathway: Introduction to Data Driven Life Sciences
Tutorials
- Genome Annotation / Comparative gene analysis in unannotated genomes ✍️ 🧐
- Transcriptomics / Reference-based RNAseq data analysis (long) ✍️
- Using Galaxy and Managing your Data / Searching Your History ✍️
- Using Galaxy and Managing your Data / Using dataset collections ✍️ 🧐
- Using Galaxy and Managing your Data / Understanding Galaxy history system ✍️ 🧐
- Proteomics / Detection and quantitation of N-termini (degradomics) via N-TAILS 🧐
- Assembly / Unicycler Assembly ✍️ 🧐
- Assembly / Making sense of a newly assembled genome ✍️ 🧐
- Assembly / Vertebrate genome assembly using HiFi, Bionano and Hi-C data - Step by Step ✍️ 🧐
- Assembly / Using the VGP workflows to assemble a vertebrate genome with HiFi and Hi-C data ✍️ 🧐
- Introduction to Galaxy Analyses / Galaxy Basics for genomics ✍️ 🧐
- Introduction to Galaxy Analyses / IGV Introduction ✍️
- Introduction to Galaxy Analyses / Very Short Introductions: QC ✍️ 🧐
- Introduction to Galaxy Analyses / NGS data logistics ✍️ 🧐
- Variant Analysis / Avian influenza viral strain analysis from gene segment sequencing data 🧐
- Variant Analysis / Calling very rare variants ✍️
- Variant Analysis / Calling variants in non-diploid systems ✍️ 🧐
- Variant Analysis / Pox virus genome analysis from tiled-amplicon sequencing data 🧐
- Variant Analysis / Calling variants in diploid systems ✍️
- Variant Analysis / From NCBI's Sequence Read Archive (SRA) to Galaxy: SARS-CoV-2 variant analysis ✍️ 🧐
- Foundations of Data Science / A (very) brief history of genomics ✍️ 🧐
- Foundations of Data Science / Introduction to sequencing with Python (part four) ✍️
- Foundations of Data Science / Introduction to sequencing with Python (part two) ✍️
- Foundations of Data Science / Versioning your code and data with git ✍️
- Foundations of Data Science / Introduction to sequencing with Python (part one) ✍️
- Foundations of Data Science / Introduction to sequencing with Python (part three) ✍️
- Foundations of Data Science / Data manipulation with Pandas ✍️
Slides
- Assembly / Deeper look into Genome Assembly algorithms ✍️
- Assembly / Unicycler Assembly ✍️ 🧐
- Foundations of Data Science / A brief history of modern biology ✍️ 🧐
FAQs
- How to enable the Activity Bar
- Upload fasta datasets via links
- Upload fastqsanger datasets via links
- Adding a tag
- Changing the datatype
- Changing database/build (dbkey)
- How to delete datasets?
- How to hide datasets?
- Importing via links
- Manipulating multiple history datasets
- How to un-delete datasets?
- How to un-hide datasets?
- Upload datasets from GenomeArk
- History annotation
- Creating a new history
- Dataset colors
- Dataset snippet
- Datasets versus collections
- View a list of all histories
- History options
- Renaming a history
- View histories side-by-side
- Switching to an existing history
- History tagging
- Top level history controls
- Undeleting history
- Why does the query `SRR11772204 OR SRR11597145 OR SRR11667145` in the Run Selector not return any results?
- Import workflows from DockStore
Video Recordings
- Using Galaxy and Managing your Data / Using dataset collections 🗣
- Introduction to Galaxy Analyses / Galaxy Basics for genomics 🗣
- Introduction to Galaxy Analyses / NGS data logistics 💬 🗣
- Variant Analysis / From NCBI's Sequence Read Archive (SRA) to Galaxy: SARS-CoV-2 variant analysis 💬 🗣
Events
GitHub Activity
github Issues Reported
42 Merged Pull Requests
See all of the github Pull Requests and github Commits by Anton Nekrutenko.
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Update tutorial.md
data-science -
Update tutorial.md
data-science
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History tutorial update
template-and-toolsgalaxy-interfacefaqs
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Very short introductions: QC
introduction
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modernization of Galaxy101
introductiontemplate-and-toolsfaqs
Reviewed 17 PRs
We love our community reviewing each other's work!
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History tutorial update
template-and-toolsgalaxy-interfacefaqs
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Very short introductions: QC
introduction
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modernization of Galaxy101
introductiontemplate-and-toolsfaqs
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Simplify MSA generation steps in tutorials by using latest MAFFT version
variant-analysis -
Long vgp tutorial edits
assembly
