Repositories list

• bisulfite-seq-data-analysis-pipeline

  Public
  This repo contains details of Bisulfite Processing Pipeline

  HTML

  •

  GNU General Public License v3.0

  •1•1•0•0•Updated Feb 25, 2025Feb 25, 2025

• CoRSIV-text-mining

  Public
  Repository containing code and analyses for the paper "Human systemic epigenetic variants are implicated in neurodevelopmental and metabolic disorders".

  Python

  •0•0•0•0•Updated Feb 14, 2025Feb 14, 2025

• EWAS-analysis-permutation-testing

  Public
  This is a suite which enables to calculate the enrichment ratios of 100,000 permuted sets of CoRSIVs and control probes.

  Python

  •0•0•0•0•Updated Feb 13, 2025Feb 13, 2025

• CoRSIV-Illumina-Overlap

  Public
  Deposits the results showing how different platforms of Illumina probes (HM450, EPIC, MSA) overlap with different versions of CoRSIV-like regions (ESS, SIV, CoRSIVs).

  Jupyter Notebook

  •0•0•0•0•Updated Jan 22, 2025Jan 22, 2025

• https_share

  Public
  USCS Visualization

  0•0•0•0•Updated Jul 7, 2023Jul 7, 2023

• CoRSIV-Capture-Design

  Public
  0•0•0•0•Updated Aug 18, 2020Aug 18, 2020

• gbrowser_files

  Public
  0•0•0•0•Updated Feb 12, 2020Feb 12, 2020

• CpGMatrixPlotter

  Public
  package to plot CpG matrix data as circles spaces proportionally apart

  Jupyter Notebook

  •1•1•0•0•Updated Oct 28, 2019Oct 28, 2019

• MCCS_ESS_Cancer

  Public
  Exploratory analysis of MCCS Cancer Cohort with ESS-SIV probes

  Jupyter Notebook

  •0•0•0•0•Updated Feb 12, 2019Feb 12, 2019

• LingyinLabNoteBook

  Public
  R

  •0•0•0•0•Updated Oct 29, 2018Oct 29, 2018

• CX-Bin

  Public
  Used to filter and bin data generated by the bismark_methylation_extractor when running with the -CX flag

  Python

  •

  MIT License

  •0•0•0•0•Updated Nov 1, 2017Nov 1, 2017

• M-bias-plotting

  Public
  Takes M-bias report files from bismark methylation extractor and generates plots

  Python

  •0•0•0•0•Updated Oct 18, 2017Oct 18, 2017

• SplitByChromosome

  Public
  Python wrapper for samtools which will split a BAM file into standard chromosomes in parallel

  Python

  •0•0•2•0•Updated Oct 10, 2017Oct 10, 2017

• BS_Capture_analysis

  Public
  Preprocessing for high resolution quality assesment

  Jupyter Notebook

  •0•0•0•0•Updated Oct 4, 2017Oct 4, 2017

• SNP_calling

  Public
  SNP calling pipline

  Jupyter Notebook

  •0•2•0•0•Updated Sep 27, 2017Sep 27, 2017

• Journal_club_notes

  Public
  Questions and Clarifications addressed during the Journal Club meetings will be updated here. Please create a directory for paper discussed in the Journal Club

  MIT License

  •0•0•0•0•Updated Sep 25, 2017Sep 25, 2017