CD2H gitForager

Lisa Johnson

Login: ljcohen

Company: University of California, Davis

Location: null

Bio: null

Blog: https://ljcohen.github.io/

Member of

Repositories

2013-11-14-woodshole: Instructional materials for Software Carpentry bootcamp at Woods Hole
2016-02-22-moon-sc-workshop: null
2016-06-16-ucdavis: null
2016-adv-begin-shell-genomics: Workshop content for http://dib-training.readthedocs.org/en/pub/2016-01-13-adv-beg-shell.html
2016-aug-nonmodel-rnaseq: null
2016_binder_test: notes from @ctb, https://github.com/ctb/2016-illo-binder
2016-illo-rst: practice with sphinx and readthedocs from @ctb
2017-10-26-ucmerced: null
2017-binder-test: null
2017-dibsi-rnaseq: null
2018-01-24-ucdavis: null
2018-02-07-smithsonian: null
2018-clustering-bins-example: null
2018-ggg201b: Class resources for Intro to Genetics and Genomics 201b at UC Davis, 2018 version
A_crassa_sponge_transcriptome: De novo transcriptome of the branching tube Caribbean sponge, Aiolochroia crassa
adage: This is the repository for ADAGE (Analysis using Denoising Autoencoders for Gene Expression)
Agilent-microarray-analyses: Agilent custom microarray, gene expression analyses
angus: Materials for Analyzing Next-Generation Sequencing (ANGUS) course.
bioinformatics: Python 3 module with bioinformatics functions
Bioinformatics-Algorithms-UCSD-class: Solutions to problems for UCSD Bioinformatics Algorithms course: https://www.coursera.org/course/bioinformatics
cloud-genomics: Lesson on Cloud/HPC for genomics lessons
dahak-eel-pond: working dir for project to turn updated eel pond protocols into a dahak-style containerized workflow
dammit: just annotate it, dammit!
DataCarpentryGenomicsFilesExamples: files from DC lesson ECL243
dib_ONP_MinION: DIB lab MinION files
dib-training: Web site for Data Intensive Training at UC Davis
ECE221: course on Computational Methods in Systems and Synthetic Biology (ECE221) at UC Davis, Dr. iIlias Tagkopoulos
ECE221_final_project: review of RNAseq differential gene expression software packages by Lisa Cohen and Jiying Li for ECE 221 at UC Davis by Dr. Ilias Tagkopoulos
ECL243: Ecological Genomics course ECL243 at UC Davis
epfl-osip-2017: Workshop for "Open Science in Practice" at EPFL
Fhet_MDPL_MDPP_salinity_DE: Differential expression analysis for Fundulus heteroclitus MDPP and MDPL populations in response to freshwater and brackish water salinity experiment
Fundulus_heteroclitus_genome_stats: stats and visualizations on differences between NCBI and EvidentialGene gene models
general: general code
glympsed: null
glympsed-1: null
hybrid_genome_assembly: Hybrid genome assembly of Fundulus killifish species with ONT and Illumina sequence data
jetstream-xsede-illo: illo with Jetstream/XSEDE cloud computing platform to practice for dibsi and training
khmer: In-memory nucleotide sequence k-mer counting, filtering, graph traversal and more
khmer-protocols: null
ljcohen.github.io_old2018: null
ljcohen.github.io_old2018: null
ljcohen.github.io_old: null
ljcohen.github.io_old2018: null
ljcohen.github.io_old2018: null
metabolic_modeling: modeling metabolic pathways
MMETSP: re-assembly and analysis of the Marine Microbial Eukaryotic Transcriptome Sequencing Project
ngs2016_important_files: practice repo for github lesson at NGS 2016 course
NGS_Reproducibility: null
organization-genomics: null
osmotic: differential expression of 17 species of killifish in response to low salinity challenge experiment
Pbx-Neuron-Paper: RNA-seq Analysis
planets: Github SC lesson @UCD workshop | January 3-4, 2018 | planets with observations.
poretools: a toolkit for working with Oxford nanopore data
Porites_astreoites_larvae_salinity: differential expression analysis of Porites astreoides larvae, acute low salinity challenge by Ana Mar�a Gonz�lez Angel, Lisa Cohen, Ben Mason, Dr. Sara Edge
R_Computing_for_Data_Analaysis: Programming Assignments in R for the Computing for Data Analaysis course (Johns Hopkins/Coursera)
RNAseq_15killifish: differential expression analysis with RNAseq data from 15 species of Fundulus killifish following a salinity exposure experiment (FW, BW, transfer)
RNA-Seq_HBOI: Scripts written in R for processing RNA-Seq data
RNAseq_Scripts: scripts parsing output from RNAseq processing steps
RNAseq-workshop-2017: materials for oct 2017 RNAseq workshop
Rosalind: Solutions to problems on the bioinformatics learning platform, Rosalind
r-socialsci: Lesson on R for social scientists.
shell-genomics: null
shmlast: null
sourmash: Compute and compare MinHash signatures for RNAseq data sets.
spreadsheet-ecology-lesson: This repository contains Data Carpentry lessons on using spreadsheets for data wrangling.
testrepo-2013-11-14-woodshole: This is a test repository for Woods Hole SWC boot camp.
training-prep-2015-09: Instructor training preparation, September 2015
TurboWaffle: Pastries with a need for speed
UCMerced-DC: UC Merced Software Carpentry Workshop
wrangling-genomics: null

Commits To

Repository	Most Recent Commit	# Commits
ljcohen/bioinformatics	2013-10-15 20:50:06.0	20
datacarpentry/DEPRECATED-cloud-genomics-orig	2017-06-22 18:33:06.0	2
datacarpentry/shell-genomics	2018-01-25 22:17:20.0	3
datacarpentry/wrangling-genomics	2018-01-25 21:48:58.0	1
datacarpentry/organization-genomics	2018-01-23 23:57:26.0	1
ngs-docs/2016-adv-begin-shell-genomics	2018-02-23 19:34:33.0	5
mblmicdiv/course2017	2017-08-15 00:14:16.0	37

This work is supported by the National Institutes of Health's National Center for Advancing Translational Sciences, Grant Number U24TR002306. This work is solely the responsibility of the creators and does not necessarily represent the official views of the National Institutes of Health.