Bioinformatics
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Updated
Nov 1, 2022 - Python
Bioinformatics
Merge a list of functional annotations with a fasta file of sequences
Program to generate RAxML sliding window trees
Substitute codons by those that are the most frequent in a specific organism
CaMELS: In silico prediction of calmodulin binding proteins and their binding sites
Using Python to locate a peptide sequence to a reference protein and PTM site
Tool for fasta/fastq files compression
convert gene to genome coordinates
Bioinformatics exercices for basics in python and a bit more advanced concepts in the later folders
Performs semi-global alignments on FASTA sequences. Homework 3 for Dr. Miller's Intro to Bioinformatics class.
Pipeline for gene candidate discovery based on mutagenesis. Featured in gene cloning research published in Nature (DOIs: 10.1038/s41467-020-14937-2, 10.1038/s41467-021-23738-0, 10.1038/s41477-021-00971-5), Molecular Plant (DOI: 10.1016/j.molp.2021.05.010) and New Phytologist (DOI: 10.1111/nph.17075).
x86-64 Pipeline used to trim and combine sanger raw data to retrieve a consesus read and other results
A Python3 script to quickly spot check 10 random sequences from a BAM/FASTx file.
This program converts PDB to FASTA sequence and maps pdb's mutation position to fasta's position.
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