tanlongzhi/dip-c

Issues

• I got a strange "Sequence Length Distribution" after pre-meta

  #65 opened 2 months ago by zcq23
  0

• merge .allValidPairs of the same celltype cells to reconstructe 3D model

  #64 opened 4 months ago by zcq23
  0

• On the issue of duplicated chromosomes

  #63 opened a year ago by HanwenZhu98
  0

• How to install Dip-C?

  #49 opened a year ago by baliaga31
  0

• Error: generate the 3D structure

  #62 opened a year ago by XiongGZ
  4

• Haploid data

  #61 opened a year ago by XiongGZ
  0

• Can not colored

  #60 opened a year ago by XiongGZ
  4

• Calculating radius of a given nucleus

  #58 opened 2 years ago by carliemcgrath
  0

• Discrepancy in txt file names between 2018 and 2019 publications

  #57 opened 2 years ago by carliemcgrath
  0

• Generating 3D proximity map and visualization of TAD

  #56 opened 2 years ago by Xuyuch
  0

• 'str' error when convert 3dg file to cif file

  #55 opened 2 years ago by Xuyuch
  1

• remove repetitive (contact-less) regions encountered a problem

  #54 opened 2 years ago by LHXqwq
  2

• distances to the nuclear center

  #53 opened 2 years ago by sunlightwang
  0

• Quality control of DipC data

  #47 opened 3 years ago by AIBio
  0

• How to generate cpg.1m.txt file for GRCh38?

  #46 opened 3 years ago by AIBio
  2

• How to remove the abnomal copy-number (CN) gains or losses regions

  #43 opened 3 years ago by pangxueyu233
  4

• The coordinate system of SNP file.

  #45 opened 3 years ago by AIBio
  2

• Question about SNP file

  #44 opened 3 years ago by AIBio
  2

• About single cell chromatin A/B compartment clustering

  #42 opened 3 years ago by AmyTanJ
  4

• Is variant masked genome ref required for the alignment ?

  #41 opened 4 years ago by yxian9
  2

• Dip-c vs hickit for preprocessing

  #17 opened 6 years ago by tarak77
  33

• Error in dip-c seg and intermediate files

  #21 opened 6 years ago by bioyuyang
  5

• hickit: invalid option -- 'M'

  #40 opened 5 years ago by conchoecia
  2

• SNP

  #39 opened 5 years ago by weilai-weilai1
  2

• In the old pipeline, Is it possible to generate models at a higher resolution?

  #36 opened 5 years ago by tarak77
  4

• Using align.py

  #38 opened 5 years ago by tarak77
  2

• Strange Segment Format

  #37 opened 5 years ago by YuxuanZheng94
  2

• change resolution from .3dg file

  #35 opened 5 years ago by lidaof
  4

• convert .3dg to pdb format?

  #34 opened 5 years ago by lidaof
  6

• Generating pile up of inter chromosomal contacts

  #33 opened 5 years ago by tarak77
  6

• a doubt in nuc_dynamics.py file

  #32 opened 6 years ago by tarak77
  4

• Highlighting centromeres in the model?

  #20 opened 6 years ago by tarak77
  12

• Similar to issue #12

  #23 opened 6 years ago by tarak77
  14

• How to pileup interchromosomal contact maps?

  #31 opened 6 years ago by tarak77
  2

• Regarding chromatin compartments

  #25 opened 6 years ago by tarak77
  7

• Minor modification about nuc_dynamic

  #30 opened 6 years ago by YuxuanZheng94
  0

• Just thinking out loud

  #22 opened 6 years ago by tarak77
  1

• Help with generating fig 4A,C from dip-c paper

  #24 opened 6 years ago by tarak77
  31

• Key difference between single cell hic and normal population hic in terms of building 3D model

  #29 opened 6 years ago by kainblue
  2

• Error when modelling unfertilized egg cell

  #28 opened 6 years ago by tarak77
  10

• Try to understand the analysis

  #26 opened 6 years ago by kainblue
  3

• SNP information for reproducing the analysis

  #27 opened 6 years ago by kainblue
  2

• Regarding exp.py

  #18 opened 6 years ago by tarak77
  6

• Error with dip-c color

  #19 opened 6 years ago by bioyuyang
  3

• Generating snp file for CAST/EiJ x C57BL/6J ?

  #13 opened 6 years ago by tarak77
  21

• Some general questions...

  #16 opened 6 years ago by tarak77
  11

• Error while preprocessing and alignment

  #11 opened 6 years ago by tarak77
  7

• Help with generating contact matrices

  #12 opened 6 years ago by tarak77
  3

• Help with regenerating fig 2A from paper

  #7 opened 6 years ago by tarak77
  4

• Error while visualizing contact files using juicebox

  #6 opened 6 years ago by tarak77
  4