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bi-be-cs-183-2023

Introduction to Computational Biology and Bioinformatics Course at Caltech, 2023

bioconda-recipes

Conda recipes for the bioconda channel.

cellxgene-census

CZ CELLxGENE Discover Census

chen_institute_datasai_for_neuroscience

confocal_z-stack_analysis

Imaging experiments in Biology often involve the acquisition of confocal z-stack images to quantify fluorescent signal in a biological sample. These z-stacks are usually analyzed using open-source programs such as FIJI, which are notoriously frustrating to work with, and do not facility intuitive high-throughput analysis of many images at once. Manual image analysis is labor-intensive, time-consuming, and prone to human error. I compiled two notebooks to streamline two of the most commonly performed tasks in the analysis of confocal z-stack images: the generation of "pretty" maximum projections, and the analysis of pixel values/ fluorescence from sum projections.

dnachisel

:pencil2: A versatile DNA sequence optimizer

epi_image_analysis

grubclub

grubClub PCB, arena STL, and component list

ibm_prof_data_science

kallisto

Near-optimal RNA-Seq quantification

lauraluebbert

phd_thesis

Code to reproduce all figures included in my Ph.D. thesis not previously published in papers.

qcbc

test_gget_alphafold

thorimage-sync_2p-analysis

Notebook to analyze ThorImage + ThorSync 2-photon data with light stimulation.

tl_2023

transcriptomics-over-time

Automatically generates plots showing the number of studies using transcriptomics technologies over time.

us_gun_violence