jome0169 Goto Github PK

agp_scripts

algorithms-design-and-analysis-part-1

all programming assignments and quiz of course offered by Stanford University in Coursera

algorithmsformolecularbiology

All homeworks and created scripts for CU's Algorithms for Molecular biology course

annotation-tools

Scripts and tools to assist annotation.

apple_gatk_scripts

augustus_training

Scripts to train augustus software using PASA pipeline output files.

basics-vimrc-tmux

bioinformatics-lab-scripts

bioinformaticsscripts

An improved Repo of usful scrips for various scripts I have designed to work with NGS data. Scripts are free to use

biologytwitterbot

Twitter bot using Tweepy to mine biology tweets.

biopython

Official git repository for Biopython (converted from CVS)

canna

containers

Bioinformatics containers

cv

My Curriculum vitae

data-analysis-and-machine-learning-projects

Repository of teaching materials, code, and data for my data analysis and machine learning projects.

dnaplotlib

DNA plotting library for Python

dotfiles

dragonn

A toolkit to learn how to model and interpret regulatory sequence data using deep learning.

finalterppush

genomeview

An extensible python-based genomics visualization engine

grfp

Here are a set of example Relevant Background and Future Goals and Graduate Research Plan Statement statements for the NSF GRFP in Ecology and Evolutionary Biology.

intronexonfetcher

A python script to get intron and exon files from a fasta file with multiple genomic scaffolds as well as

itak

iTAK

iterm2-tmux-vimrc

jome0169.github.io

mendieta.c4_manuscript

Code used for the analysis of C4 cis-regulatory elements.

mendieta_dissertation_github

Supplamental Figures and Tables for Pablo Mendieta's Dissertation 2024

mendietapablo_annotation_paper_scripts

Scripts used for analysis and pipline of Mendieta et al 2020

multilevel_modeling

Data and code used in paper: Students are rarely independent: When, why, and how to use random effects in discipline-based education research

nf-repeatmasking

Nextflow workflow for automatic repeat detection, classification and masking