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ambra-code

Code examples for all things Ambra Health

annofuse

Filter and prioritize fusion calls

annofusedata

annotsv

aws-cost-explorer-report

Python SAM Lambda module for generating an Excel cost report with graphs, including month on month cost changes. Uses the AWS Cost Explorer API for data.

bix-molecular-subtyping

bixanalysis

Tracking analysis & informatics Requests

bixtools

🐳 Dockerfiles for bioinformatics tools

bixu-shinyapp-cloud-credit-billing-group

canine-dev

Canine WF development

canvas_cnv

Workflow to run cnv caller from Illumina, https://github.com/Illumina/canvas

cavatica-tools

cavatica_airflow_plugins

Operators, Sensors, and other plugins for working with Cavatica via Airflow

cbioportal

cBioPortal for Cancer Genomics

cbioportal-core

Externalized cBioPortal Core

cbioportal-frontend

React Frontend of cBioPortal :tada:

cbttc-cell-line-project

celllines-profiling-analysis

Stemness analysis in HGG Suspension vs Adhesion cell lines

clinical-data-flow

📓Project management and design artifacts for Clinical Data Flow

codex2

CWL Implementation of exome CNV caller https://github.com/yuchaojiang/CODEX2

controlfreec_cnv

Re-develop/redeploy our controlfreec tool to include exome mode

d3b-app-fhir-etl

d3b-arcus-manifest-prep

🗃️ tool to generate manifests for transfering cbtn data to arcus

d3b-autopvs1

This is a modiifed port of the original https://github.com/JiguangPeng/autopvs1, branched from commit `7fb1be97667e5ef576f81bf2fabbddcf9a4c7594`. It was re-worked in order to work with Kids First germline annotation outputs.

d3b-bixu-data-assembly

d3b-bixu-template

d3b-cavatica-python-tools

Collection of python tools for interacting with the cavatica API

d3b-cds-manifest-prep

scripts to prep manifests for cds

d3b-cli-igor

All-purpose CLI tool for D3b Center and partner orgs

d3b-dev-rnaseq-snv

RNAseq SNV Calling Workflow (beta). This workflow follows the COV-IRT NASA-developed pipeline, with the exception of joint genotyping-specific params and steps.