ay-lab/HiCnv ay-lab/HiCnv

  • Stars
    star
    21
  • Rank 1,084,038 (Top 22 %)
  • Language
    Python
  • Created almost 7 years ago
  • Updated 8 months ago
Twitter logo Share LinkedIn logo Share Facebook logo Share
ay-lab/HiCnv
github

ay-lab

Reviews

There are no reviews yet. Be the first to send feedback to the community and the maintainers!

Repository Details

HiCnv is used to call copy number variations and breakpoints from Hi-C data

More 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

selfish

SELFISH is a tool for finding differential chromatin interactions between two Hi-C contact maps.
Python
17
star
7

HiCtrans

HiCtrans is a pipeline to call translocations from Hi-C data
R
15
star
8

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
9

Colocalization

Co-localization analysis between reference GWAS and eQTL summary statistics
R
8
star
10

ChIPLine

ChIP-seq analysis pipeline
Shell
8
star
11

AveSim

AveSim is a pipeline to simulate Hi-C matrices involving CNVs and translocations.
Perl
5
star
12

3D-IKAROS

Utility scripts related to IKAROS manuscript
R
3
star
13

IQTL

Interaction QTL (IQTL) using HiChIP contacts
R
3
star
14

S_LDSC_SNP

Stratified LD score regression analysis
Shell
3
star
15

GhmCN

Graphical 5hmC Convolutional Networks
Python
2
star
16

Utilities

Various utility scripts for 3C data analysis
R
2
star
17

pieQTL_NG

R
2
star
18

dcHiCviz

Visualization for dcHiC files.
HTML
1
star
19

Brd2_analysis

Analysis and data from report titled 'Brd2 is dispensable for genome compartmentalization and replication timing'
HTML
1
star
20

FineMap

R
1
star
21

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