linuxbrew.sh

Linuxbrew by Linuxbrew

The Homebrew package manager for Linux. Download .tar.gz. Is a fork of Homebrew. The Mac OS package manager, for Linux. It can be installed in your home directory and does not require root access. The same package manager can be used on both your Linux server and your Mac laptop. Installing a modern version of. In your home directory on an old distribution of Linux takes five minutes. Features, usage and installation instructions are summarised on the homepage. Install Linuxbrew (tl;dr). Linuxbrew does n...

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Linuxbrew by Linuxbrew | linuxbrew.sh Reviews

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The Homebrew package manager for Linux. Download .tar.gz. Is a fork of Homebrew. The Mac OS package manager, for Linux. It can be installed in your home directory and does not require root access. The same package manager can be used on both your Linux server and your Mac laptop. Installing a modern version of. In your home directory on an old distribution of Linux takes five minutes. Features, usage and installation instructions are summarised on the homepage. Install Linuxbrew (tl;dr). Linuxbrew does n...

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Linuxbrew by Linuxbrew | linuxbrew.sh Reviews

https://linuxbrew.sh

The Homebrew package manager for Linux. Download .tar.gz. Is a fork of Homebrew. The Mac OS package manager, for Linux. It can be installed in your home directory and does not require root access. The same package manager can be used on both your Linux server and your Mac laptop. Installing a modern version of. In your home directory on an old distribution of Linux takes five minutes. Features, usage and installation instructions are summarised on the homepage. Install Linuxbrew (tl;dr). Linuxbrew does n...

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happygitwithr.com

Happy Git and GitHub for the useR

http://happygitwithr.com/contrib.html

Happy Git and GitHub for the useR. A work in progress. Is it going to hurt? What is the payoff? Who can do what? Special features of GitHub. What’s special about using R with Git and GitHub? What this is NOT. SatRday Cape Town 2017. CSAMA 2016: Statistical Data Analysis for Genome Biology. Success and operating systems. Register a GitHub account. Pay for private repos. Install or upgrade R and RStudio. More about R and RStudio. Introduce yourself to Git. Install a Git client. Make a repo on GitHub. RStud...

sjackman.ca

Portfolio

http://sjackman.ca/portfolio

Papers, posters and slides. Organellar Genomes of Sitka Spruce (Picea sitchensis): Assembly and Annotation. SMRT Informatics Developers Conference 2017. Graphical Fragment Assembly (GFA) 2.0. Homebrewing Science with Linuxbrew and Homebrew. Automating Data-analysis Pipelines using R and Make hands-on activity. Open, reproducible science using Make, RMarkdown and Pandoc. More slides on Speaker Deck. PAG 2017 Organellar Genomes of Sitka Spruce (. ISMB 2016 Organellar genomes of white spruce (.

sjackman.ca

Automating data-analysis pipelines using R and Make

http://sjackman.ca/2016-02-15-r-and-make

Automating data-analysis pipelines using R and Make. Slides and a hands-on activity. Posted on February 15, 2016. And a hands-on activity. Automating’ comes from the roots ‘auto-‘ meaning ‘self-‘, and ‘mating’, meaning ‘screwing’. See also Open, reproducible science using Make, RMarkdown and Pandoc. Larr; Previous Post. Next Post →. Shaun Jackman • 2017 • sjackman.ca.

sjackman.ca

White spruce genome assembly

http://sjackman.ca/2014-07-13-white-spruce-genome

White spruce genome assembly. Assembly of a twenty gigabase genome using ABySS. Posted on July 13, 2014. To assemble the genome of white spruce (. Which is twenty gigabases, seven times larger than the human genome. I also assembled and annotated the organellar genomes of white spruce, the chloroplast and mitochondrion. Larr; Previous Post. Next Post →. Shaun Jackman • 2017 • sjackman.ca.

sjackman.ca

UniqTag

http://sjackman.ca/2014-08-08-uniqtag

Abreviate gene sequences to unique and stable identifiers. Posted on August 8, 2014. Is used to abbreviate gene sequences to unique and stable identifiers. It selects a representative. Mer from the sequence of each gene to be used as a systematic identifier for that gene. Unlike serial numbers, these identifiers are stable between different assemblies and annotations of the same data without requiring that previous annotations be lifted over by sequence alignment. Larr; Previous Post. Next Post →.

sjackman.ca

Organellar genomes of white spruce

http://sjackman.ca/2016-02-13-white-spruce-organelles

Organellar genomes of white spruce. The plastid and mitochondrial genomes of Picea glauca. Posted on February 13, 2016. Chloroplast genomes of gymnosperms, including conifers, are well studied, but little is known about the mitochondria of gymnosperms. In fact, only a single gymnosperm mitochondrion is found in NCBI GenBank, and no conifer mitochondrion genomes are to be found at all, until now. Roughly one percent of the whole genome sequencing reads of white spruce (. Genome Biology and Evolution.

sjackman.ca

Linuxbrew and Homebrew-Science

http://sjackman.ca/2016-03-01-linuxbrew

The Homebrew package manager for Linux. Posted on March 1, 2016. Is a package manager for Linux derived from Homebrew. The Mac OS package manager. It can be installed in your home directory and does not require root access. The same package manager can be used on both your Linux server and your Mac laptop. Installing a modern version of. In your home directory on an old distribution of Linux takes five minutes. Over two hundred. Current bioinformatics software packages are available in Homebrew-science.

sjackman.ca

Shaun Jackman

http://sjackman.ca/about-me

PhD candidate in bioinformatics, programmer, engineer. Shaun Jackman • 2017 • sjackman.ca.

sjackman.ca

How to read the written plan of living cells

http://sjackman.ca/2016-03-02-written-plan-of-living-cells

How to read the written plan of living cells. My research explained using only the ten hundred words used most often. Posted on March 2, 2016. Written using The Up Goer Five Text Editor. And inspired by Keith Bradnam’s blog post How would you describe genomics without using any scientific jargon? And Randall Munroe’s excellent xkcd: Up Goer Five. Larr; Previous Post. Next Post →. Shaun Jackman • 2017 • sjackman.ca.

sjackman.ca

ABySS 2.0

http://sjackman.ca/2016-08-08-abyss-2.0

Resource-Efficient Assembly of Large Genomes using a Bloom Filter. Posted on August 8, 2016. Read the preprint on bioRxiv doi:10.1101/068338. The ABySS 2.0 software will be tagged and released once the paper has been reviewed. Check out out the ABySS GitHub branch. In the mean time. Larr; Previous Post. Shaun Jackman • 2017 • sjackman.ca.

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Linuxbrew by Linuxbrew

The Homebrew package manager for Linux. Download .tar.gz. Is a fork of Homebrew. The Mac OS package manager, for Linux. It can be installed in your home directory and does not require root access. The same package manager can be used on both your Linux server and your Mac laptop. Installing a modern version of. In your home directory on an old distribution of Linux takes five minutes. Features, usage and installation instructions are summarised on the homepage. Install Linuxbrew (tl;dr). Linuxbrew does n...

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