kircherlab

CADD-scripts

CADD scripts release for offline scoring. For more information about CADD, please visit our website

cfDNA

cfDNA analysis workflow

CADD-SV

CADD-SV – a framework to score the effect of structural variants

hemoMIPs

Automated analysis and result reporting for targeted sequencing data

cfDNA_GCcorrection

MPRAsnakeflow

new implementation of MPRAsnakeflow fork of MPRAflow

MPRA_SaturationMutagenesis

R Shiny website of the Saturation Mutagenesis manuscript

CADD-browserTracks

UCSC genome browser tracks for CADD

cfDNA-UniFlow

Workflow for preprocessing cfDNA samples.

cookiecutter-snakemake-workflow

A cookiecutter template for Snakemake workflows

cookiecutter-snakemake-wrappers

Cookiecutter template for snakemake wrappers.

kircherlab.github.io

Kircher Lab website

MPRAsnakeflow_tutorial

negative_training_sampler

ReMM

ReMM score snakemake workflow

snakemake_wrappers

snakemake wrappers to share with others and to us ethem in multiple projects

bc_mpralm

Adaptation of mpralm that allows for modeling individual barcodes

HowToTrainDNN

Tutorial for IGVF-MPRA-Workshop-2024, Lübeck, Germany

MPRAOligoDesign

Basic scripts for creating an oligo design file

TF_enrichment_workflow

Workflow to calculate enrichment of transcriptionfactors in open chromatin regions