Pinned Repositories
ONT_Illumina_genome_assembly
Genome assemblies of Fundulus killifish species with ONT and Illumina sequence data
dib_ONP_MinION
DIB lab MinION files
jetstream-xsede-illo
illo with Jetstream/XSEDE cloud computing platform to practice for dibsi and training
MMETSP
re-assembly and analysis of the Marine Microbial Eukaryotic Transcriptome Sequencing Project
Pbx-Neuron-Paper
RNA-seq Analysis for Hanley et al. 2016
2018-setacna-rnaseq
SETAC North America Annual Meeting: mRNAseq Data Workshop Training Course (Nov. 4, 2018)
osmotic
de novo assembly and annotation of 17 species of killifish from Illumina RNAseq reads
RNAseq_17killifish
differential expression analysis with RNAseq data from multiple species of Fundulus killifish following a salinity exposure experiment (FW, BW, transfer)
johnsolk's Repositories
johnsolk/MMETSP
re-assembly and analysis of the Marine Microbial Eukaryotic Transcriptome Sequencing Project
johnsolk/jetstream-xsede-illo
illo with Jetstream/XSEDE cloud computing platform to practice for dibsi and training
johnsolk/dammit
just annotate it, dammit!
johnsolk/RMarkdownDIBSI2018
version control Rmd lesson, practice pushing files
johnsolk/shell-genomics
johnsolk/wrangling-genomics
johnsolk/2018-01-24-ucdavis
johnsolk/2018-02-07-smithsonian
johnsolk/2018-clustering-bins-example
johnsolk/2018-ggg201b
Class resources for Intro to Genetics and Genomics 201b at UC Davis, 2018 version
johnsolk/2018-paper-reanalysis-op-ed
johnsolk/2020-Feb-25_jupyter
Exploring jupyter notebooks, demo
johnsolk/A_crassa_sponge_transcriptome
De novo transcriptome of the branching tube Caribbean sponge, Aiolochroia crassa
johnsolk/angus
Materials for Analyzing Next-Generation Sequencing (ANGUS) course.
johnsolk/audio_signal_processing
Exploring Python libraries for sound data processing
johnsolk/blog
blog posts
johnsolk/dahak-eel-pond
working dir for project to turn updated eel pond protocols into a dahak-style containerized workflow
johnsolk/data
johnsolk/DataCarpentryGenomicsFilesExamples
files from DC lesson ECL243
johnsolk/dib-training
Web site for Data Intensive Training at UC Davis
johnsolk/Fundulus_heteroclitus_genome_stats
stats and visualizations on differences between NCBI and EvidentialGene gene models
johnsolk/johnsolk.github.io
.Rmd website for Lisa K. Johnson
johnsolk/loupeR
Convert Seurat objects to 10x Genomics Loupe files.
johnsolk/ogrants
Open grants list
johnsolk/organization-genomics
johnsolk/planets
Github SC lesson @UCD workshop | January 3-4, 2018 | planets with observations.
johnsolk/r-socialsci
Lesson on R for social scientists.
johnsolk/RNAseq-workshop-2017
materials for oct 2017 RNAseq workshop
johnsolk/UCMerced-DC
UC Merced Software Carpentry Workshop
johnsolk/visium_batch_effects
Tutorial correcting batch effects in 10x Visium data using Harmony: https://www.10xgenomics.com/resources/analysis-guides/correcting-batch-effects-in-visium-data