jesse-islam Goto Github PK

atgc_survival_presentation_feb.27.2020

basicgameingadot

makes a basic game in godot following tutorial: https://www.youtube.com/watch?v=Mc13Z2gboEk

basicgodotgame

creates a simple game in godot enginer following this tutorial series https://www.youtube.com/watch?v=Mc13Z2gboEk

basicneuralnetworkpackage

Implementing a basic neural network from scratch, by translating a tutorial from Javier Ideami on Medium. https://towardsdatascience.com/coding-a-2-layer-neural-network-from-scratch-in-python-4dd022d19fd2

casebase

casebaseipascore

casebaseregularization

cbnn

R package for case-base neural networks:

cbnnmanuscript

Code required for simulations, casestudies, and paper that generates CBNN manuscript

cbpaper

Source code for Casebase paper

clustalsort

Sorts the output of clustal given strings starting with xx- or x-

genpipesextension

I extended genpipes by creating a script to work with the output folder structure. We get a few transcript and gene expression counts which we can use for analysis. uses txImporter, featurecounts and stringtie's prepDE.py

godotplayground

A bunch of small godot projects

gtfmerge

merges two GTF reference genomes

heartbeastarpgtutorialgodot

All the code needed to follow and develop the game by heartbeast following this tutorial series: https://www.youtube.com/watch?v=mAbG8Oi-SvQ

jesse-islam.github.io

Personal Website

ligated-plasmid-checker-for-inserts

Made to take information from nanuq, and takes well positions, sequence name and the inserts

neuralnetworkplayground

A repository to try out all the new fancy techniques I come across.

rdatasets-bioconductor

A collection of datasets originally distributed in bioconductor packages

riskregression

R package for risk regression and prediction with censored data

rnaseq-qc-tools-genpipes

a set of functions to streamline the analysis of RNAseq using deseq2. We base the code here off of the output of genpipes

rnaseqqcgenpipes

set of tools to unify the output of genpipes, and extend its functionality to include quality control assessments

rosalindcode

rpkg

Sahir's R package creation tutorial

simulatesurvival

A bunch of code to simulate survival data

statisticalrethinking

Examples I work through in the statistical rethinking textbook

survivalmlpusingcasebase-ai-genomics

This repository was created for the WINTER 2020 AI-genomics course given by district 3. the purpose of this project is to create a novel approach to survival analysis using casebase sampling. Casebase sampling reformulates how survival analysis is done, making existing methods like logistic regression feasible in a survival setting.

survivalscraper

scrapes taskview links

tradingsims

user--casebase-presentation

R-code to generate slides for the R presentation