Explore @sib-swiss Open Source projects

SIB Swiss Institute of Bioinformatics (@sib-swiss)

sib-swiss

Stars
1,610
Global Org. Rank 11,100 (Top 4 %)
Registered almost 9 years ago
Most used languages

Jupyter Notebook
19.3 %

R
15.8 %

HTML
15.8 %

Python
10.5 %

Shell
10.5 %

C
7.0 %

PHP
3.5 %

Java
3.5 %

TypeScript
3.5 %

Perl
1.8 %

Scala
1.8 %

JavaScript
1.8 %

C++
1.8 %

C#
1.8 %

Fortran
1.8 %
Location 🇨🇭 Switzerland
Country Total Rank 298
Country Ranking

R
31

Jupyter Notebook
49

Fortran
52

Python
69

HTML
81

Shell
120

PHP
162

Perl
180

Scala
311

C
345

Java
658

C#
710

C++
758

JavaScript
783

TypeScript
813

training-collection

Collection of bioinformatics training materials

single-cell-training

SIB course on single cell transcriptomics by mostly using the Seurat pipeline

intermediate-python-training

Jupyter Notebook

first-steps-with-python-training

repository of the 3-day course "First steps with Python in Life Sciences" from SIB-training

Jupyter Notebook

first-steps-with-R-training

repository of the 2-day course "First steps with R in Life Sciences" from SIB-training

intro-machine-learning-training

Jupyter Notebook

glittr

A web application for finding and comparing bioinformatics training materials on GitHub and GitLab

containers-introduction-training

Course website "Docker and Singularity for reproducible research: getting started with containers"

NGS-variants-training

GitHub for the SIB courses NGS - Genome variant analysis

intro-bayesian-statistics-training

react-dotlet

Full JS version of Dotlet

statistics-and-machine-learning-training

Jupyter Notebook

RNAseq-introduction-training

Webpage of the "Introduction to RNA-Seq: From quality control to pathway analysis - streamed" SIB course.

NGS-introduction-training

SIB course that introduces analysis of NGS data

pftools3

A suite of tools to build and search generalized profiles

introduction-to-statistics-with-python-training

material for the "Introduction to Statistics with Python" SIB-training course

Jupyter Notebook

2017-10-longreads-training

sparql-examples

A set of SPARQL examples that are used in different SIB resources

NGS-longreads-training

sparql-training

This repository contains training material for querying SIB (Swiss Institute of Bioinformatics) resources with SPARQL.

Jupyter Notebook

Knoto-ID

Topological invariants of open curves using the concept of knotoids

advanced-statistics

Webpage for SIB's advanced statistics course

multiomics-data-analysis-and-integration-training

pytorch-practical-training

pratrical crash course on pytorch by reproducing some published biology-related deep-learning models

Jupyter Notebook

sparql-llm

🦜✨ Chat system and reusable components to improve LLMs capabilities when generating SPARQL queries

Jupyter Notebook

unix-first-steps-training

SIB First Steps with UNIX course

enrichment-analysis-training

Course material for Enrichment analysis course by SIB

SchoolRNA2020

Summer School on Computational RNA Biology

kgsteward

Knwowledge Graph Steward - Command line tool to help manage RDF store (GraphDB)

HAMAP-SPARQL

Supplements for hamap as sparql

AWS-docker

Set of commands to deploy docker containers on an AWS instance

dsSwissKnife

dotlet

Compare biological sequences by the diagonal plot method

Introduction-to-statistics-with-R

megaclust

unbiased hierarchical density based parallel clustering of large datasets

VibrioCholerae_HGT

Tools for the analysis of horizontal gene transfer in Vibrio cholerae

dsSwissKnifeClient

sparql-editor

💫 A standard web component to deploy a user-friendly SPARQL query editor for one or more endpoints. Built on the popular YASGUI editor, it provides context-aware autocomplete for classes and predicates based on the content of the endpoints.

dsQueryLibrary

genome-jumper

spatial-transcriptomics-training

epinorm

Scripts for processing of disease outbreak records as part of the MOOD project.

virusscan

Detection and quantification of virus sequences from illumina fastq files

dh-mr-mark16

This Github webpage describes the SNSF MARK16 Manuscript Room API (https://mr-mark16.sib.swiss). It has been updated in this June 2023 by Silvano Aldà (Core-IT, SIB) based on a first code written by Jonathan Barda (Core-IT, SIB). MARK16 (2018-2023) has been led by Claire Clivaz (PI) with Mina Monier, Elisa Nury and Priscille Marschall (DH+, SIB).

dh-cpa

The authors of the CPA DM font are Alain J. Desreumaux (CNRS, Paris, FR) and Tim Meylan (Professor of Typography, HEVS, Sierre, CH). Font Engineering and mastering : Alphabet Type (Berlin, DE). With Jérémy Formaz (Forme.ch, Sion, CH), under the lead of Claire Clivaz (SIB, CH). Author of theCPA DM KeymanWeb: Silvano Aldà (SIB, CH).

spring_school_bioinformatics_microbiology

Jupyter Notebook

sendcrypt

Modern and easy to use client to securely send encrypted sensitive data by SFTP. Linux, MacOS, and Windows.

hugo-pathogens-portal

Hugo pathogens portal theme

intermediate-machine-learning-training

Intermediate Machine Learning course of the Swiss Institute of Bioinformatics

Jupyter Notebook

Data-analysis-in-practice

training-collection-app

Web application to browse bioinformatics training material on GitHub

consensusOPLS

2016-06-20-lausanne

Software carpentry training material. Date of event: 20/21 June 2016

sib-software-stack

Scripts and documentation to deploy the SIB software stack

taccession

single-cell-python-training

Rhea-EC-prediction

Jupyter Notebook

SPARQL_course

Recon4IMD SPARQL introduction course

opal-docker-sib

wikidata-orthologs-bot

Bots and scripts to enrich Wikidata using SIB orthologs databases, such as OMA.

micmap

Mapping of short reads in fastq format onto a reference

pyrheadb

Repository for the Python package intended to facilitate access to Rhea data from Python

pftools

A suite of tools to build and search generalized profiles

reproducible-analysis-training

SIB course on FAIR analysis with Quarto, GitHub and Zenodo