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shlienlab

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  1. raccoon raccoon Public

    Multi-scale clustering in Python

    Python 4 4

  2. WGS_somatic_pipeline WGS_somatic_pipeline Public

    A WDL workflow and wrapper for executing tumour + normal alignment, somatic small variant discovery, somatic structural variant and somatic copy number alteration discovery.

    Perl 3 1

  3. SVetect SVetect Public

    A tool for identifying and classifying structural rearrangements and chromoplexy from high throughput sequencing data.

    Python 2 3

  4. cosmic.cancer.gene.census cosmic.cancer.gene.census Public

    A R package with common functions for annotating and filtering mutation data using the COSMIC cancer gene census

    R 1 1

  5. RNAmp RNAmp Public

    RNA Amplification in primary tumors

    R 1

  6. ShlienLab.Core.SSM ShlienLab.Core.SSM Public

    A R package for processing simple somatic mutations from MuTect2 data used in the Shlien Lab

    R

Repositories

Showing 10 of 11 repositories
  • otter-api-wrapper-python Public

    Python API wrapper for using the Otter webapp: otter.ccm.sickkids.ca

    shlienlab/otter-api-wrapper-python’s past year of commit activity
    Python 0 0 0 0 Updated Oct 28, 2024
  • otter-api-wrapper-R Public

    R API wrapper for using the Otter webapp: otter.ccm.sickkids.ca

    shlienlab/otter-api-wrapper-R’s past year of commit activity
    R 0 0 0 0 Updated Oct 28, 2024
  • pre-otter Public

    RNA-seq pipeline to go from paired end fastq.gz files to TPM file and submit to the otter web app.

    shlienlab/pre-otter’s past year of commit activity
    Python 0 AGPL-3.0 0 0 0 Updated Oct 24, 2024
  • raccoon Public

    Multi-scale clustering in Python

    shlienlab/raccoon’s past year of commit activity
    Python 4 GPL-3.0 4 1 0 Updated Aug 10, 2022
  • otter Public

    Ensemble of convolutional neural networks for transcriptional classification

    shlienlab/otter’s past year of commit activity
    Python 0 2 1 0 Updated Aug 6, 2022
  • RNAmp Public

    RNA Amplification in primary tumors

    shlienlab/RNAmp’s past year of commit activity
    R 1 0 0 0 Updated Aug 1, 2022
  • WGS_somatic_pipeline Public

    A WDL workflow and wrapper for executing tumour + normal alignment, somatic small variant discovery, somatic structural variant and somatic copy number alteration discovery.

    shlienlab/WGS_somatic_pipeline’s past year of commit activity
    Perl 3 AGPL-3.0 1 0 0 Updated Jul 4, 2022
  • SVetect Public

    A tool for identifying and classifying structural rearrangements and chromoplexy from high throughput sequencing data.

    shlienlab/SVetect’s past year of commit activity
    Python 2 3 1 0 Updated Feb 12, 2018
  • ShlienLab.Core.Filter Public

    A R package for filtering somatic mutation data used in the standard production pipeline in the Shlien Lab

    shlienlab/ShlienLab.Core.Filter’s past year of commit activity
    R 0 1 0 0 Updated May 18, 2017
  • cosmic.cancer.gene.census Public

    A R package with common functions for annotating and filtering mutation data using the COSMIC cancer gene census

    shlienlab/cosmic.cancer.gene.census’s past year of commit activity
    R 1 1 0 0 Updated May 18, 2017
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