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Lina Kim (lina-kim)

lina-kim

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Company:ETH Zürich

Location:Zürich, Switzerland

Home Page:https://linkedin.com/in/linakkim

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Lina Kim's starred repositories

facets

Visualizations for machine learning datasets

Language:Jupyter NotebookLicense:Apache-2.0Stargazers:7341Issues:267Issues:159

RISE

RISE: "Live" Reveal.js Jupyter/IPython Slideshow Extension

Language:JavaScriptLicense:NOASSERTIONStargazers:3666Issues:84Issues:449

notero

A Zotero plugin for syncing items and notes into Notion

Language:TypeScriptLicense:MITStargazers:2148Issues:26Issues:227

fastp

An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)

Language:C++License:MITStargazers:1837Issues:50Issues:511

seqtk

Toolkit for processing sequences in FASTA/Q formats

Language:CLicense:MITStargazers:1354Issues:62Issues:171

bioicons

A library of free open source icons for science illustrations in biology and chemistry

Language:VueLicense:MITStargazers:1249Issues:17Issues:43

training-collection

Collection of bioinformatics training materials

Language:PythonLicense:NOASSERTIONStargazers:950Issues:43Issues:68

prokka

:zap: :aquarius: Rapid prokaryotic genome annotation

Language:PerlStargazers:787Issues:47Issues:639

enterprise_gateway

A lightweight, multi-tenant, scalable and secure gateway that enables Jupyter Notebooks to share resources across distributed clusters such as Apache Spark, Kubernetes and others.

Language:PythonLicense:NOASSERTIONStargazers:617Issues:40Issues:570

qiime2

Official repository for the QIIME 2 framework.

Language:PythonLicense:BSD-3-ClauseStargazers:459Issues:37Issues:353

bactopia

A flexible pipeline for complete analysis of bacterial genomes

Language:NextflowLicense:MITStargazers:385Issues:14Issues:487

stringtie

Transcript assembly and quantification for RNA-Seq

Language:C++License:MITStargazers:361Issues:28Issues:423

Training-modules

Materials for short, half-day workshops

Language:Jupyter NotebookStargazers:297Issues:22Issues:23

DESeq2

Differential gene expression analysis based on the negative binomial distribution

Language:RStargazers:283Issues:22Issues:60

nagini

Nagini is a static verifier for Python 3, based on the Viper verification infrastructure.

Language:PythonLicense:MPL-2.0Stargazers:222Issues:6Issues:118

The-world-of-faculty

resources for faculty

License:MITStargazers:207Issues:10Issues:0

beepr

The package that sounds as it is called.

Language:RStargazers:203Issues:8Issues:31

nf-tower

Nextflow Tower system

Language:GroovyLicense:MPL-2.0Stargazers:143Issues:17Issues:309

MelBioInf_docs

Melbourne Bioinformatics documentation in markdown format

Language:HTMLStargazers:95Issues:19Issues:17

labmanual

Lab Manual for the Aly Lab at the University of California, Berkeley

Stargazers:93Issues:10Issues:0

PathoScope

Pathoscope: Species identification and strain attribution with unassembled sequencing data

Language:PythonLicense:GPL-3.0Stargazers:54Issues:11Issues:17

zinbwave-deseq2

Workflow for ZINB-WaVE + DESeq2 intergration for single-cell RNA-seq

Stargazers:29Issues:4Issues:2

q2-fondue

Functions for reproducibly Obtaining and Normalizing Data re-Used from Elsewhere

Language:PythonLicense:BSD-3-ClauseStargazers:20Issues:7Issues:73

q2-feature-classifier

QIIME 2 plugin supporting taxonomic classification

Language:PythonLicense:BSD-3-ClauseStargazers:18Issues:11Issues:91

conferences

Contains conference presentations and public links.

License:UnlicenseStargazers:11Issues:4Issues:0

cancer-microbiome-intervention-tutorial

JupyterBook for QIIME 2 FAES January 2022 workshop

Language:Jupyter NotebookLicense:NOASSERTIONStargazers:10Issues:6Issues:25

nucleic

Analysis and plotting library for base substitution spectra and signatures

Language:PythonLicense:MITStargazers:7Issues:4Issues:18

q2-umap

Applying umap to microbiome data via QIIME2

Language:PythonLicense:BSD-3-ClauseStargazers:4Issues:0Issues:0

q2-plugin-template

A skeleton for QIIME 2 plugins

Language:PythonLicense:BSD-3-ClauseStargazers:3Issues:4Issues:1

provenance-lib

QIIME 2 Provenance Replay Tools

Language:PythonLicense:BSD-3-ClauseStargazers:3Issues:7Issues:71