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Pachter Lab's Projects

aaquant icon aaquant

Annotation-Agnostic RNA-seq Quantification

aggregationde icon aggregationde

Scripts and software supplement for "Gene-level differential analysis at transcript-level resolution" by Yi, Pimentel, Bray and Pachter

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Bioinformatics for Benched Biologists

bcltools icon bcltools

(still in development only a few things work) tools for converting bcls to fastqs and fastqs to bcls

bi-be-cs-183-2022 icon bi-be-cs-183-2022

Website for the 2021-2022 Caltech class Bi/BE/CS 183: Introduction to Computational Biology and Bioinformatics

bi-be-cs-183-2023 icon bi-be-cs-183-2023

Introduction to Computational Biology and Bioinformatics Course at Caltech, 2023

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Bi/BE/CS 183 Winter 2019 - Introduction to Computational Biology and Bioinformatics

blcsbglkp_2020 icon blcsbglkp_2020

Code for analysis of SARS-CoV-2 sequencing based diagnostic testing data

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Decrease in ACE2 mRNA expression in aged mouse lung, bioRxiv, 2020.

byvstzp_2020 icon byvstzp_2020

This repository contains the code for reproducing all the results and figures from the preprint "Isoform specificity in the mouse primary motor cortex".

cgal icon cgal

Computing genome assembly likelihoods

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