Issues

• How to add annotation to the input bed file that makes it though to the results file?

  nsheff/LOLA#48 · Filter by author methornton opened on Nov 4, 2025

• Error when trying to load a regionDB

  nsheff/LOLA#46 · Filter by author HanneHjorthaug opened on May 24, 2023

• Fisher test - two sided hypothesis

  nsheff/LOLA#45 · Filter by author JBinkowski opened on Feb 13, 2023

• P4 tool not grouping according to the paper!!

  nsheff/LOLA#43 · Filter by author 09Raghu09 opened on Jul 28, 2022

• LOLA runLOLA-regionDB to use for tissue-specific TFBS

  nsheff/LOLA#42 · Filter by author shanie-landen opened on Apr 13, 2021

• R package error

  nsheff/LOLA#41 · Filter by author yangyongsan-bio opened on Apr 8, 2021
  4

• question: how to test two region sets for differential enrichment with buildRestrictedUniverse?

  nsheff/LOLA#39 · Filter by author AdrijaK opened on Nov 23, 2020
  2

• Error if GRangesList has names

  nsheff/LOLA#38 · Filter by author j-lawson opened on May 27, 2020
  2

• testing for enrichment of significant individual cpgs

  nsheff/LOLA#36 · Filter by author lxw391 opened on Feb 24, 2020
  2

• PEP tag system

  enhancement
  nsheff/LOLA#34 · Filter by author nsheff opened on Oct 28, 2019

• Can't load an example regionDB.

  nsheff/LOLA#33 · Filter by author lining-yuan opened on Oct 27, 2019
  3

• PEP file read caching

  nsheff/LOLA#32 · Filter by author nsheff opened on Oct 25, 2019
  2

• runLOLA results table for PEP databases

  nsheff/LOLA#31 · Filter by author joseverdezoto opened on Oct 25, 2019

• cistrome_mm10

  nsheff/LOLA#29 · Filter by author byerscan opened on Feb 19, 2019
  2

• Inclusion of mm10 JASAPR prediction track into LOLA JASPAR

  nsheff/LOLA#28 · Filter by author holgerbrandl opened on Oct 16, 2018
  3

• Different results between LOLAweb interactive server and local R package

  nsheff/LOLA#27 · Filter by author NyxSLY opened on Apr 25, 2018
  7

• Re-order result columns

  nsheff/LOLA#26 · Filter by author nsheff opened on Apr 23, 2018

• Merging database region-sets

  nsheff/LOLA#18 · Filter by author flopflip opened on Jun 22, 2017
  2

• Histone marks collections

  nsheff/LOLA#12 · Filter by author ceiron61 opened on Mar 31, 2016

• Negative c entry in table. Bug with userSetsLength; this should not happen.

  nsheff/LOLA#11 · Filter by author ceiron61 opened on Mar 18, 2016
  9

• Command line interface

  nsheff/LOLA#8 · Filter by author ghost opened on Apr 24, 2015

• clarify checkUniverseAppropriateness

  nsheff/LOLA#3 · Filter by author nsheff opened on Apr 14, 2015

• reading zipped bed files

  nsheff/LOLA#1 · Filter by author nsheff opened on Feb 17, 2015
  1