Alex Rubinsteyn's repositories
adversarial-impute
Possibly ill-fated experimented with Generative Adversarial Imputation
censored_regression
Linear regression with lower-bound labels
immunesearch
Search for peptide substrings in IEDB T-cell assay data
prototype-pan-allele-class2
Prototype of a pan-allele Class II MHC binding predictor
avroglob
Bundle together the contents of a directory into a single AVRO file
bioseq
Compact library for working with biological sequences (DNA, RNA, and Proteins)
cohort-seq2hla
Run the TRON seq2HLA script on a collection of related RNA samples
CompleteThat
CompleteThat is a python package that solves the low rank matrix completion problem. Given a low rank matrix with partial entries the package solves an optimization problem to estimate the missing entries.
fermikit
De novo assembly based variant calling pipeline for Illumina short reads
hadoop-variant-caller
Simple repo containing a Hadoop MapReduce configured via Maven
insert-aligner
k-mer aligner to detect where a transposon was inserted in a longer sequence
keras-GAN
Generative Adversarial Networks with Keras
mhc_ligandome
MHC binding predictions for human proteome
mhcseqs
Sequence of MHCs across species
mr-python-variant-caller
Simple somatic variant caller in Python w/ Hadoop Streaming
mri_biopsy
Predict presence of prostate cancer from pre-biopsy MRI images
pepsearch
Search reference proteomes for short peptides
sam-perf-experiments
Simple performance test of SAM parsing performance in Python
scikit-bio
scikit-bio is an open-source, BSD-licensed, Python package providing data structures, algorithms, and educational resources for bioinformatics.
scikit-learn
scikit-learn: machine learning in Python
vaxrank-application-note-2017
Draft of a Bioinformatics Application Note for Vaxrank