ay-lab/dcHiC

Issues

• Issue with running dcHiC

  #102 opened 3 months ago by rkash
  10

• functionsdchic install error

  #101 opened 3 months ago by IcyYeyangchen
  2

• The program segfaults on ubuntu 22.04

  #99 opened 6 months ago by bhristov6
  13

• Issue with pandoc

  #100 opened 5 months ago by Weiming113
  4

• Identify differential compartment bins from a user-defined PC1 table of five time points

  #95 opened 7 months ago by Jiangyuan-Liu
  1

• error at pcatype=cis level

  #98 opened 7 months ago by Sen0108
  7

• Error in step 2 of the run_dchic.sh script

  #72 opened a year ago by asgda
  6

• recommended or default p-value/p-adj cutoff

  #97 opened 8 months ago by usernicai
  4

• pca select error: hclust

  #92 opened 8 months ago by katecycho
  2

• pcatype enrich gene list error

  #96 opened 8 months ago by katecycho
  2

• A question about Fig 5C legend "membership"

  #94 opened 8 months ago by Jiangyuan-Liu
  1

• Can't get --bdgfile flag to work.

  #93 opened 8 months ago by RomeroMatt
  2

• Error: not enough observations

  #91 opened 8 months ago by katecycho
  8

• error running trans

  #85 opened 9 months ago by katecycho
  3

• Question regarding enrich

  #90 opened 9 months ago by RomeroMatt
  2

• Error: upper value must be greater than lower value after removing X, Y, M chromosomes

  #88 opened 9 months ago by yardimcilab
  3

• issue with html

  #89 opened 9 months ago by katecycho
  2

• In function `geneEnrichment`, the "pcQnm" bedgraph is loaded when `pcgrp `= "pcOri" — is this correct?

  #86 opened 10 months ago by kalavattam
  2

• error in hclust (--pcatype select)

  #84 opened 10 months ago by katecycho
  3

• error: arguments imply differing number of rows

  #83 opened 10 months ago by katecycho
  11

• Error running FitHiC step in dcHiC workflow for cis interactions: `Error in ids_sample[[i]] : subscript out of bounds`

  #81 opened 10 months ago by kalavattam
  6

• How to extract compartment A/B information for each sample

  #53 opened 2 years ago by KunFang93
  6

• question about input/sample subtypes

  #82 opened a year ago by katecycho
  5

• Error during subcompartment calling

  #77 opened a year ago by TH-L
  6

• Solution of installation error for hashmap package

  #79 opened a year ago by ay-lab
  0

• Issue with FitHiC implementation

  #78 opened a year ago by asgda
  10

• My input hic file contains chr1, chr2, chr3..... instead of 1, 2, 3..... and therefore shows error when I preprocess the hic files for running dchic

  #76 opened a year ago by asgda
  4

• Small bug in utillities/preprocess.py + solution, 'chromosome not found in the file' error.

  #67 opened a year ago by lauhinojosa
  2

• Pairwise and multi-datasets A/B compartment calling with different resolutions

  #74 opened a year ago by KC-Lan
  2

• "IndexError: list index out of range" while using --pcatype fithic

  #64 opened 2 years ago by Lucas446
  11

• error in hclust (--pcatype select)

  #47 opened 2 years ago by Nico-FR
  4

• Normalized counts or raw counts?

  #48 opened 2 years ago by Nico-FR
  2

• hashmap

  #49 opened 2 years ago by EnrichettaMileti
  3

• dloop error

  #58 opened 2 years ago by Zheng19w
  6

• error when running cis and analysis

  #69 opened a year ago by catherine0202
  5

• --pcatype cis crashing

  #71 opened a year ago by wkc1986
  2

• error: Two levels of parallelism are used. See `?assert_cores`.

  #50 opened 2 years ago by Woohootakeoff
  5

• `numberclust` parameter

  #51 opened 2 years ago by YichaoOU
  2

• pcOri values not matched between different conditions

  #54 opened 2 years ago by KunFang93
  2

• Error: upper value must be greater than lower value Execution halted

  #52 opened 2 years ago by KunFang93
  3

• running dhHiC on nf-core hic pipeline output file

  #55 opened 2 years ago by chklopp
  1

• cis interaction matrix and trans interaction matrix

  #56 opened 2 years ago by Zheng19w
  10

• Genome selection problem

  #57 opened 2 years ago by Zheng19w
  9

• The difference between calculations for weighted center across replicates or samples

  #61 opened 2 years ago by dangdachang
  6

• Error while installing functionsdchic

  #63 opened 2 years ago by Lucas446
  4

• Visualization

  #65 opened 2 years ago by Lucas446
  12

• Error for trans

  #68 opened 2 years ago by YH-Li7
  8

• dcHIC --pcatype analyze: dim(X) must have a positive length

  #66 opened 2 years ago by Lucas446
  2

• preprocess.py -removeChr arguments must be lowercase

  #70 opened a year ago by wkc1986
  1

• Question regarding the 'refgene.bed' file in geneEnrichment analysis

  #73 opened a year ago by KC-Lan
  2