Search results

How to use liger in the mitigate effects of cell cycle heterogeneity

Status: Open.

#327 In welch-lab/liger;

· DINGQIA opened on Mar 13, 2025

How to find value of best k

Status: Open.

#326 In welch-lab/liger;

· karenlawwc opened on Feb 11, 2025

Error in UseMethod("runINMF", object) : no applicable method for 'runINMF' applied to an object of class "list"

Status: Open.

#325 In welch-lab/liger;

· wang0430 opened on Dec 25, 2024

1 comment

Parameter optimization guidance for cross species integration

Status: Open.

#324 In welch-lab/liger;

· KaczorowskiLab opened on Nov 8, 2024

Error in ImputeKNN

Status: Open.

#313 In welch-lab/liger;

· kangjiajinlong opened on Jun 11, 2024

Error when performing the Wilcoxon test on the peak counts

Status: Open.

#312 In welch-lab/liger;

· zhangyz1997 opened on May 20, 2024

1 comment

Query on building shared factor neighborhood graph

enhancementNew feature or requestNew feature or request

Status: Open.

#311 In welch-lab/liger;

· yuzhong1997 opened on May 16, 2024

2 comments

Issue with loading old liger object via convertOldLiger function

Status: Open.

#307 In welch-lab/liger;

· ellenbouchard opened on Mar 23, 2024

3 comments

Dataset specificity plot

help wantedExtra attention is neededExtra attention is needed

Status: Open.

#298 In welch-lab/liger;

· yolcasmar opened on Feb 14, 2024

How to improving similarity between snRNA-seq and snATAC-seq nuclei, by tuning parameters like 'k', 'lambda'?

Status: Open.

#297 In welch-lab/liger;

· wangmeijiao opened on Jan 18, 2024

4 comments

Bug in Seurat's wrapper function

bugSomething isn't workingSomething isn't working

Status: Open.

#292 In welch-lab/liger;

· soheilj opened on Oct 31, 2023

1 comment

Generate gene and promoter bed files

help wantedExtra attention is neededExtra attention is needed

Status: Open.

#289 In welch-lab/liger;

· ericzzhang01 opened on Jul 13, 2023

Another request for help regarding SCTransform

questionFurther information is requestedFurther information is requested

Status: Open.

#282 In welch-lab/liger;

· cblazier opened on Feb 3, 2023

1 comment

Integrating SCTransform-normalised data with LIGER

Status: Open.

#277 In welch-lab/liger;

· lucygarner opened on Nov 1, 2022

1 comment

plotgeneloadings, runGSEA, plotWordClouds error

Status: Open.

#275 In welch-lab/liger;

· Prathyusha-konda opened on Oct 19, 2022

Integrate multiomics RNA and ATAC data generates trivial all-zero latent values

Status: Open.

#265 In welch-lab/liger;

· elhaam opened on Jul 10, 2022

3 comments

Error in Integrating multiomics RNA and ATAC data after removing one cell-type from RNAseq data

Status: Open.

#264 In welch-lab/liger;

· elhaam opened on Jul 10, 2022

3 comments

Missing value OptimizeALS

Status: Open.

#263 In welch-lab/liger;

· mtegtmey opened on Jun 6, 2022

4 comments

Combining sequencing platforms - 10x and Cel-seq2 - Error in if (trim > 0 && n) { : missing value where TRUE/FALSE needed

Status: Open.

#253 In welch-lab/liger;

· reberya opened on Jan 25, 2022

2 comments

Integration of multiple scATAC samples

questionFurther information is requestedFurther information is requested

Status: Open.

#251 In welch-lab/liger;

· rLannes opened on Jan 12, 2022

the error with liger

questionFurther information is requestedFurther information is requested

Status: Open.

#224 In welch-lab/liger;

· honghh2018 opened on Jun 13, 2021

12 comments

set.dr.lims default?

Status: Open.

#182 In welch-lab/liger;

· samuel-marsh opened on Jul 22, 2020

analysis of multiple time points * 2 replicates of scRNA-seq

questionFurther information is requestedFurther information is requested

Status: Open.

#138 In welch-lab/liger;

· tanasa opened on Jan 26, 2020