@ay-lab
github

ay-lab

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  • Stars
    star
    370
  • Global Rank 75,074 (Top 3 %)
  • Followers 61
  • Following 1
  • Registered over 8 years ago
  • Most used languages
    R
         40.9 %
    Python
         31.8 %
    Shell
         13.6 %
    HTML
         9.1 %
    Perl
         4.5 %

Top repositories

1

fithic

Fit-Hi-C is a tool for assigning statistical confidence estimates to chromosomal contact maps produced by genome-wide genome architecture assays such as Hi-C.
Python
79
star
2

mustache

Multi-scale Detection of Chromatin Loops from Hi-C and Micro-C Maps using Scale-Space Representation
Python
62
star
3

dcHiC

dcHiC: Differential compartment analysis for Hi-C datasets
R
56
star
4

FitHiChIP

Statistically Significant loops from HiChIP data
R
38
star
5

ATACProc

ATAC-seq processing pipeline
Shell
30
star
6

HiCnv

HiCnv is used to call copy number variations and breakpoints from Hi-C data
Python
21
star
7

selfish

SELFISH is a tool for finding differential chromatin interactions between two Hi-C contact maps.
Python
17
star
8

HiCtrans

HiCtrans is a pipeline to call translocations from Hi-C data
R
15
star
9

ExTraMapper

ExTraMapper is a tool to find Exon and Transcript-level Mappings of a given pair of orthologous genes between two organisms using sequence conservation.
Python
9
star
10

Colocalization

Co-localization analysis between reference GWAS and eQTL summary statistics
R
8
star
11

ChIPLine

ChIP-seq analysis pipeline
Shell
8
star
12

AveSim

AveSim is a pipeline to simulate Hi-C matrices involving CNVs and translocations.
Perl
5
star
13

3D-IKAROS

Utility scripts related to IKAROS manuscript
R
3
star
14

IQTL

Interaction QTL (IQTL) using HiChIP contacts
R
3
star
15

S_LDSC_SNP

Stratified LD score regression analysis
Shell
3
star
16

GhmCN

Graphical 5hmC Convolutional Networks
Python
2
star
17

Utilities

Various utility scripts for 3C data analysis
R
2
star
18

pieQTL_NG

R
2
star
19

dcHiCviz

Visualization for dcHiC files.
HTML
1
star
20

Brd2_analysis

Analysis and data from report titled 'Brd2 is dispensable for genome compartmentalization and replication timing'
HTML
1
star
21

FineMap

R
1
star
22

HiCKRy

HiCKRy is a tool developed by the Ay Lab to normalize HiC data using the Knight-Ruiz algorithm for matrix normalization.
Python
1
star