Lifebit

Pinned Repositories

action-cloudos-cli
:octocat: Github action to programmatically interact with the Lifebit CloudOS platform using the official API client cloudos-cli
Language:Shell27 6 112
cloudos
cloudos: An R package for the Lifebit CloudOS Platform
Language:Jupyter Notebook8 16 301
cloudos-cli
Python library and Command Line Interface for interacting with Lifebit Applications
Language:Python46 8 730
DeepVariant
Deep Variant as a Nextflow pipeline
Language:Nextflow30 31 328
dry-bench-skills-for-researchers
Learning resources originally for a class held December 2020 "Dry bench skills for Researchers". Expanding based upon mini-courses.
Language:Jupyter Notebook11 9 2020
ecw-converter
Dockerised python scripts & Nextflow pipeline for converting ecw files to either geotiffs or Cloud Optimised Geotiffs (COGs)
Language:Python6 5 15
GATK
Germline Variant Calling Nextflow Pipeline Based On GATK4 Best Practices
Language:Nextflow12 4 014
kallisto-sra
Language:Nextflow8 10 16
prs
Polygenic Risk Scores Pipeline to calculate genetic risk score for any given phenotype/trait (using PRSice)
Language:Nextflow11 11 283
template-nf
Lifebit curated Nextflow pipeline template repository
Language:CSS2 1 01

Lifebit's Repositories

lifebit-ai/cloudos-cli
Python library and Command Line Interface for interacting with Lifebit Applications
Language:Python46 8 730
lifebit-ai/action-cloudos-cli
:octocat: Github action to programmatically interact with the Lifebit CloudOS platform using the official API client cloudos-cli
Language:Shell27 6 112
lifebit-ai/mutational-signature-nf
Language:Nextflow2 16 11
lifebit-ai/template-nf
Lifebit curated Nextflow pipeline template repository
Language:CSS2 1 01
lifebit-ai/template4users
A nextflow pipeline template for Users
Language:Nextflow2 1 04
lifebit-ai/mutational-signature-aggregation-nf
Results aggregation from https://github.com/lifebit-ai/mutational-signature-nf
Language:Nextflow1 5 0
lifebit-ai/twas
Pipeline for performing transcriptome-wide association analysis
Language:CSS1 2 00
lifebit-ai/gel-data-queries-resources
Notebooks and scripts for querying programmatically source and OMOP data
Language:Jupyter Notebook0 2 00
lifebit-ai/nextflow
A DSL for data-driven computational pipelines
Language:Groovy0 1 00
lifebit-ai/spammer-nf
A stampede of processes at your fingertips
Language:Nextflow0 20 16
lifebit-ai/bam2cram
Language:Nextflow2 01
lifebit-ai/cancer_drivers
pull out coding mutations from annotation vcfs
Language:Python
lifebit-ai/CNest-nf
Nextflow pipeline for CNest -
Language:Nextflow1 01
lifebit-ai/cromwell
Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to massive scale production environments
lifebit-ai/demo-from-template
Language:CSS3 0
lifebit-ai/design-tokens
Language:CSS5 0
lifebit-ai/diagnostic-check-nf
Language:Nextflow2 0
lifebit-ai/ETL-LambdaBuilder
CDM Builder leveraging AWS Lambda
Language:C#0 0
lifebit-ai/exomiser-pipeline-nf
Nextflow pipeline for - https://github.com/exomiser/Exomiser
Language:Python3 11
lifebit-ai/fedai-scGPT-cell-type
Source code for base scGPT cell type training model for federated learning
Language:Jupyter Notebook2 0
lifebit-ai/flatironQA
A nextflow pipeline that orchestrates Flatiron internal data QA
Language:CSS
lifebit-ai/h3agwas
GWAS Pipeline for H3Africa
Language:Python3 52
lifebit-ai/images
Repository to store images/gifs to use as links in other repos/tutorials etc
20 0
lifebit-ai/MungeSumstats
Rapid standardisation and quality control of GWAS or QTL summary statistics
Language:R0 0
lifebit-ai/owen-biomarker-discovery-challenge-candidate-drugs
Language:HTML0 0
lifebit-ai/terraform-public-modules
Terraform public modules
Language:HCL14 0
lifebit-ai/test-nf
Language:JavaScript2 0
lifebit-ai/workflow-1
Language:Shell2 0
lifebit-ai/workflow-1-with-cloudos-cli
Language:Nextflow2 0
lifebit-ai/workflow-2
Language:Nextflow2 0