Pinned Repositories
bigint
An implementation of a fixed point integer datatype for the C programming language.
circualign
A tool to align circular genomes on a common feature
fastpath
A program to find the path through a network of nodes.
genbank
Python code to work with Genbank files
kmeans
A python implementation of the kmeans algorithm that functions as a drop in for sklearn
PHACTS
A simple program to classify the lifestyle of phages.
PHANOTATE
PHANOTATE: a tool to annotate phage genomes.
prfect
Software to predict the occurence of programmed ribosomal frameshifting in bacterial, phage, and viral genomes
ReadMapper
ReadMapper is a program that maps sequencing reads to a nucleotide backbone, and then creates a publication quality figure.
RepeatFinder
A python package to quickly find repeats in a DNA sequence
deprekate's Repositories
deprekate/PHANOTATE
PHANOTATE: a tool to annotate phage genomes.
deprekate/PHACTS
A simple program to classify the lifestyle of phages.
deprekate/fastpath
A program to find the path through a network of nodes.
deprekate/prfect
Software to predict the occurence of programmed ribosomal frameshifting in bacterial, phage, and viral genomes
deprekate/circualign
A tool to align circular genomes on a common feature
deprekate/RepeatFinder
A python package to quickly find repeats in a DNA sequence
deprekate/kmeans
A python implementation of the kmeans algorithm that functions as a drop in for sklearn
deprekate/genotate
Prokaryotic and phage genome annotation tool
deprekate/aragorn
tRNA and tmRNA finding
deprekate/goodorfs
Code to classify open reading frames into coding and noncoding
deprekate/HotKnots
Fast, and best, DNA/RNA folding algorithm
deprekate/genbank
Python code to work with Genbank files
deprekate/2bitSeq
deprekate/CodingFrame
A tool to identify which of the six frames of a DNA backbone is the protein coding frame
deprekate/dedupe
:id: A python library for accurate and scalable fuzzy matching, record deduplication and entity-resolution.
deprekate/fasta36
A python port of the fasta36 genomic sequence search code
deprekate/find_overlaps
deprekate/fix_names
deprekate/function_align
Code to multiple-align sets of ordered genes by their function
deprekate/genbank_template
A boilerplate template that uses the genbank pypi package to work with genbank files
deprekate/ggVennDiagram
A 'ggplot2' implement of Venn Diagram.
deprekate/gloome_tools
Script to mess with gloome output
deprekate/LinearFold
The new source code of the LinearFold, linear-time prediction for RNA secondary structures
deprekate/PhANNs
deprekate/protdist
A python script to run protdist easily
deprekate/pytorch_multi_node
deprekate/revcomp
deprekate/seq-align
Fast, portable C implementations of Needleman-Wunsch and Smith-Waterman sequence alignment
deprekate/seqdbmaker
Scripts to create a sequence database
deprekate/tensorflow
An Open Source Machine Learning Framework for Everyone