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1. papaemmelab/nf-ffperase papaemmelab/nf-ffperase Public

   🔬Nextflow pipeline for FFPE artifact removal.

   Python 4 2

2. papaemmelab/toil_container papaemmelab/toil_container Public

   🐳 Toil + Docker and Singularity.

   Python 9 6

3. PCAP-core PCAP-core Public

   Forked from cancerit/PCAP-core

   NGS reference implementations and helper code for mapping (originally part of ICGC-TCGA-PanCancer)

   Perl

4. papaemmelab/split_bed_by_reads papaemmelab/split_bed_by_reads Public

   Split bed intervals by maximum read counts

   Nim 9

5. papaemmelab/nf-proteinactivity papaemmelab/nf-proteinactivity Public

   nf-core modules to compute protein activity network interactions

   Nextflow

6. papaemmelab/Domenico_Asimomitis_ICML_2023 papaemmelab/Domenico_Asimomitis_ICML_2023 Public

   Code accompanying "High-Resolution Interpretable Classification of Artifacts versus Real Variants in Whole Genome Sequencing Data from Archived Tissue" by Domenico & Asimomitis et al. https://icml-…

   Jupyter Notebook 1