Pinned Repositories
bcbio-nextgen
Validated, scalable, community developed variant calling and RNA-seq analysis
bcbio-nextgen-vm
Run bcbio-nextgen genomic sequencing analyses using isolated containers and virtual machines
bwa
Burrow-Wheeler Aligner for pairwise alignment between DNA sequences
cbioportal
cBioPortal for Cancer Genomics
Content-Analyzer
cookbook
Cookbook for Node on FHIR and the clinical Meteor.js build pipeline. Create FDA, HIPPA, and HL7 compliant Javascript/Node applications!
DeepPATH
Classification of Lung cancer slide images using deep-learning
DNAcodec
Program to encode binary files to DNA sequences with embedded error correction
docker-django-local
Dockerfiles to create images for use in local Django development environments
Matplotlib-2.0-by-examples
a113n's Repositories
a113n/Matplotlib-2.0-by-examples
a113n/bcbio-nextgen
Validated, scalable, community developed variant calling and RNA-seq analysis
a113n/bcbio-nextgen-vm
Run bcbio-nextgen genomic sequencing analyses using isolated containers and virtual machines
a113n/cbioportal
cBioPortal for Cancer Genomics
a113n/Content-Analyzer
a113n/cookbook
Cookbook for Node on FHIR and the clinical Meteor.js build pipeline. Create FDA, HIPPA, and HL7 compliant Javascript/Node applications!
a113n/DeepPATH
Classification of Lung cancer slide images using deep-learning
a113n/docker-django-local
Dockerfiles to create images for use in local Django development environments
a113n/docker-pycron
Configurable scheduling for custom python scripts
a113n/exSTRa
Expanded STR algorithm for Illumina sequencing data
a113n/geneimpacts
prioritize effects of variant annotations from VEP, SnpEff, et al.
a113n/how_to_build_a_bitcoin_startup
This is the code for "How to Build a Bitcoin Startup" by Siraj Raval on Youtube
a113n/igv.js
Lightweight html5 version of the Integrative Genomics Viewer
a113n/indigo
Indigo: SNV and InDel Discovery in Chromatogram traces obtained from Sanger sequencing of PCR products
a113n/jscomut
An interactive co-mutation plot generator, in-browser but fully client-side. Load a data file, play with the geometry of the chart, explore your data, and save an svg file.
a113n/medplum
Medplum is a healthcare platform that helps you quickly develop high-quality compliant applications.
a113n/MotionCollector
iOS app for collecting data from internal motion sensors (gyroscope, magnetometer, accelerometer) of iPhone and Apple Watch.
a113n/node-on-fhir
Tech stack for building MACRA and 21st Century Cures compliant webapps.
a113n/OpenAI-Whisper-Audio-Transcription-And-Summarization-Chatbot
Web app enabling users to either record or upload audio files. Then utilizing OpenAI API (Whisper, GPT4) generates transcriptions, summaries, fact checks, sentiment analysis, and text metrics. Users can also intelligently chat about their transcriptions with a GPT4 chatbot. Data is stored relationally in SQLite and also vectorized in Pinecone.
a113n/phenotips
PhenoTips provides an easy-to-use Web interface and standardized database back-end for collecting clinical findings observed in patients with possible genetic disorders.
a113n/serverless-summarize-foundational-model
a113n/stain_adversarial_learning
Using adversarial feature learning and color augmentation to address the variability in histopathology images
a113n/StainTools
Tools for tissue image stain normalization and augmentation in Python 3. [python, scientific]
a113n/streamlit_whisper_transcription
Streamlit Audio Transcription with OPENAI's Whisper Ai: An interactive Streamlit app demonstrating real-time audio transcription using OPENAI's Whisper Ai.
a113n/teal
Sanger Trace Viewer
a113n/tracy
Basecalling, alignment, assembly and deconvolution of Sanger Chromatogram trace files
a113n/varapp-backend-py
Django backend to varapp
a113n/varapp-frontend-react
React frontend to varapp
a113n/vcf2db
create a gemini-compatible database from a VCF
a113n/viral-ngs
Viral genomics analysis pipelines