mattjones315 Goto Github PK

bachelorpredict

Neural Net to predict the outcomes for ABC's The Bachelor.

bmi203-hw-1

Sorting Algs written in Python

bmi203-hw-2

Clustering Protein Sequences

cellranger

10x Genomics Single Cell 3' Gene Expression and VDJ Assembly

codonbias

Scripts for Analyzing Mutational Bias in Coding Regions of the Human Genome

countymap

An interactive map for representing projected savings per County

extended-single-cell-best-practices

contributing a lineage tracing chapter to the extended-single-best-practices textbook

fastproject

Dimensionality reduction for single cell RNA-seq data

hrrmap

An interactive map for representing projected savings per HRR

hsamap

An interactive map for representing projected savings per HSA

htslib

C library for high-throughput sequencing data formats

kptracer-release

Code & utilities for the manuscript "Lineage Recording Reveals the Phylodynamics, Plasticity and Paths of Tumor Evolution"

localalignment.jl

Local Sequence Alignment using Smith-Waterman, implemented in Julia.

mattjones315.github.io

metastasistracing

Scripts & Notebooks for the analysis of dynamic lineage tracing of lung cancer metastasis.

multi-seq

R implementation of MULTI-seq sample classification workflow

nccb_website

website for Northern California Computational Biology group

neuralnet.jl

Basic 3 Layer Neural Nets for Classifying Transcription Factor Binding Sequences

pepper

PEPPER-Margin-DeepVariant

pod5-file-format

Pod5: a high performance file format for nanopore reads.

ramaplot

A small module for computing dihedral angles between molecules in a protein, and generating Ramachandran plots from the results.

rpackage_tutorial

A tutorial on how to make your first R package.

scanpy

Single-Cell Analysis in Python. Scales to >1M cells.

scde

R package for analyzing single-cell RNA-seq data

scvi

Deep generative modeling for single-cell transcriptomics

shape-motif

splatter

Simple simulation of single-cell RNA sequencing data

star

RNA-seq aligner

tensorflowintro

An introduction to using Tensorflow for the Center for Computational Biology Skills Seminar

umi-tools

Tools for handling Unique Molecular Identifiers in NGS data sets