rlorigro

Pinned Repositories

alignment_visualization
Visualize how reads align to a reference
Language:Python1 1 00
cartpole_policy_gradient
a simple 1st order PG solution to the openAI cart pole problem (adapted from @ts1839) and an RNN based PG variation on this
Language:Python4 1 00
GFAse
Tool for globally phasing diploid assembly graphs with orthogonal data
Language:C++39 6 114
nanopore_assembly_and_polishing_assessment
Automation of pipelines that depend on preexisting assembly, polishing, and alignment tools. Performance evaluation and visualization of assembly and polishing
Language:Python13 2 05
runlength_analysis
for analyzing sequence data in RLE space
Language:Python2 1 02
shallow_neural_network_example
A jupyter notebook demonstrating the application of a simple neural network to approximation of a region of the sine function
Language:Jupyter Notebook4 1 13
shasta
Experimental software for de novo assembly from Nanopore sequencing data.
Language:C++2 1 01
simple-dotplot
Very simple and configurable all-in-one dotplot program
Language:C++12 2 10
TaskManager
Monitors resources and sends notifications, ideal for managing large computational experiments on AWS
Language:Python4 3 51
GetBlunted
For bluntifying overlapped GFAs
Language:C++13 5 160

rlorigro's Repositories

rlorigro/cartpole_policy_gradient
a simple 1st order PG solution to the openAI cart pole problem (adapted from @ts1839) and an RNN based PG variation on this
Language:Python4 1 00
rlorigro/shallow_neural_network_example
A jupyter notebook demonstrating the application of a simple neural network to approximation of a region of the sine function
Language:Jupyter Notebook4 1 13
rlorigro/runlength_analysis
for analyzing sequence data in RLE space
Language:Python2 1 02
rlorigro/alignment_visualization
Visualize how reads align to a reference
Language:Python1 1 00
rlorigro/Nanopore
Tools for MinION signal analysis
Language:Python1 1 0
rlorigro/pileupGenerator
Pipeline for pixel encoded pileup generation from genomic alignment files
Language:Python1 3 0
rlorigro/lassen
Cpp wrapper for benedictpaten/marginPhase
Language:C++1 0
rlorigro/multithreading
example of threading a directory of files
Language:Python1 0
rlorigro/nanopore_assembly
methods for assembly polishing nanopore data
Language:Python1 0
rlorigro/nanopore_signal_simulation
A simple nanopore signal simulation, used for generating a practice dataset
Language:Python
rlorigro/pytorch
Tensors and Dynamic neural networks in Python with strong GPU acceleration
Language:C++1 0
rlorigro/variant_classifier
Uses BAM-derived data to determine whether a genomic position contains a variant of any type
Language:Python1 0