Phlya

Phlya's Stars

• DistrictDataLabs/yellowbrick

  Visual analysis and diagnostic tools to facilitate machine learning model selection.

  Language:Python4.3k103696559

• quantopian/qgrid

  An interactive grid for sorting, filtering, and editing DataFrames in Jupyter notebooks

  Language:Python3.1k88289423

• nextflow-io/nextflow

  A DSL for data-driven computational pipelines

  Language:Groovy2.8k893.4k643

• napari/napari

  napari: a fast, interactive, multi-dimensional image viewer for python

  Language:Python2.2k463.1k426

• raphaelvallat/pingouin

  Statistical package in Python based on Pandas

  Language:Python1.7k32304143

• deeptools/pyGenomeTracks

  python module to plot beautiful and highly customizable genome browser tracks

  Language:Python78231210115

• deeptools/deepTools

  Tools to process and analyze deep sequencing data.

  Language:Python69143947212

• leotac/joypy

  Joyplots in Python with matplotlib & pandas :chart_with_upwards_trend:

  Language:Jupyter Notebook571105360

• mdozmorov/HiC_tools

  A collection of tools for Hi-C data analysis

  555366125

• astrofrog/mpl-scatter-density

  :zap: Fast scatter density plots for Matplotlib :zap:

  Language:Python502143026

• pyranges/pyranges

  Performant Pythonic GenomicRanges

  Language:Python4471322147

• akdemirlab/HiCPlotter

  “When everything is connected to everything else, for better or worse, everything matters.” Bruce Mau

  Language:Python183155878

• open2c/cooltools

  The tools for your .cool's

  Language:Jupyter Notebook1431331051

• open2c/pairtools

  Extract 3D contacts (.pairs) from sequencing alignments

  Language:Python1061116132

• open2c/distiller-nf

  A modular Hi-C mapping pipeline

  Language:Groovy881014925

• FlyRanch/figurefirst

  A layout-first approach to figure making

  Language:Python81115415

• open2c/coolpuppy

  A versatile tool to perform pile-up analysis on Hi-C data in .cool format.

  Language:Python78611212

• tariks/peakachu

  Genome-wide contact analysis using sklearn

  Language:Python6022310

• zhoujt1994/scHiCluster

  Language:Python6041818

• open2c/polychrom

  Chromosome polymer simulations and in silico capture experiments

  Language:Python4792116

• XiaoTaoWang/HiCPeaks

  A Python implementation for BH-FDR and HiCCUPS

  Language:Python43299

• XiaoTaoWang/TADLib

  A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains

  Language:Python4032711

• scoutzxb/CscoreTool

  Language:C++205164

• dozmorovlab/HiCcompare

  Joint normalization of two Hi-C matrices, visualization and detection of differential chromatin interactions. See multiHiCcompare for the analysis of multiple Hi-C matrices

  Language:R193313

• ay-lab/selfish

  SELFISH is a tool for finding differential chromatin interactions between two Hi-C contact maps.

  Language:Python173217

• XiaoTaoWang/Best-Labs-of-3D-Genome

  Data and the co-authored network I extracted for lab selection in 3D genome research field

  Language:Python14203

• agalitsyna/RedClib

  Red-C data processing

  Language:Nextflow13302

• agalitsyna/avTAD

  Plotting average TAD heatmap for Hi-C data (give TAD segmentation and cool/hiclib interactions map).

  Language:Python10212

• encent/hichew

  Optimal TAD calling and clustering. Accurate and fast.

  Language:Python5100

• ArtemLuzhin/C-TALE-Normalization

  Code and examples for C-TALE normalization

  Language:Jupyter Notebook11