Erik Sjölund's repositories
diagonalsw
C/C++ implementation of the Smith-Waterman algorithm by using SIMD operations (e.g SSE4.1)
install-linux-hp-elitebook-850-g5
Sharing some notes about running Ubuntu 18.04.1 on HP EliteBook 850 G5
install-cryo-em-workstation
Step-by-step instructions for installing an Ubuntu workstation with standard cryo-em software
empty-argv-segfault-check
Test if an executable segfaults when started with an empty argv. The script may be used as a vulnerability-scanner to find setuid executables having buggy code (but it will probably not find any direct security vulnerabilities).
nmrpipe-automatic-installation
Shell script to install NMRPipe on Ubuntu Linux
simd-diagonal-load
Header-only C++ library to load SIMD-vectors column-wise from a matrix but then use diagonally
compile-time-simd-blend-mask
Compile-time blend masks that unifies _mm256_blend_epi8, _mm256_blend_epi16, _mm256_blend_epi32
osd-spot-viewer
Demonstrating how to use OpenSeadragon to create a viewer for displaying colored circles on top of a high resolution photo. The photo tiles and the circle colors are retrieved from a single data file. The example shows gene expression data.
ansible
Ansible is a radically simple IT automation platform that makes your applications and systems easier to deploy. Avoid writing scripts or custom code to deploy and update your applications— automate in a language that approaches plain English, using SSH, with no agents to install on remote systems.
ansible-role-cuda-prefix
Ansible role that installs cuda into custom folder and creates modulecmd configuration file
cufflinks-ubuntu-singularity-container
Documentation of how to create an Ubuntu singularity container with cufflinks installed
diy-accordion-tuner
Plans how to build an electronic accordion tuner device (including air pump)
hh-suite
Remote protein homology detection suite.
install-ensemble-into-a-linux-container
Install Ensemble Suite (NMR software) into a Linux container
install-gitlab-lxd-ubuntu
Install GitLab CE into an LXD container running Ubuntu 16.04
openseadragon
An open-source, web-based viewer for zoomable images, implemented in pure JavaScript.
openseadragon.github.com
Website for OpenSeadragon
osd-spot-viewer-webpack-build
Contains generated javascript files from a webpack build of osd-spot-viewer
singularity
Singularity: Application containers for Linux
singularityware.github.io
base documentation site for Singularity software
site-build
Build script and documents for the OpenSeadragon site
st_exp_protobuf
File format for spatial gene data. The file contains a small header, gene expression data and image tiles from a high resolution photo.The header serves as a table of contents. A single image tile can thus be retrieved without having to read the whole file.
st_viewer
The ST viewer is a tool to visualize spatially resolved gene expression data on top of cell tissue figures with the correct location.