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using raw counts and determening scales in CreasteCasperObject

Status: Open.

#88 In akdess/CaSpER;

· anastasija-jakjimovska opened on Jan 29, 2025

Why did you use control sample ids in loh for BRCA and GBM data, not use in Meningioma dataset?

Status: Open.

#87 In akdess/CaSpER;

· kadersaribulak opened on Nov 19, 2024

Error in plotBAFInSeperatePages and plotSingleCellLargeScaleEventHeatmap

Status: Open.

#86 In akdess/CaSpER;

· mehlu22 opened on Oct 16, 2024

Error in running Casper

Status: Open.

#85 In akdess/CaSpER;

· mehlu22 opened on Oct 10, 2024

Batch correction for raw scRNAseq from multiple patients

Status: Open.

#84 In akdess/CaSpER;

· danyangli123 opened on Aug 30, 2024

phylogenetic tree/tumor subclone

Status: Open.

#83 In akdess/CaSpER;

· Mashuaiii opened on Mar 4, 2024

how to create geno.rna object in https://rpubs.com/akdes/673120

Status: Open.

#82 In akdess/CaSpER;

· BioAmelie opened on Feb 17, 2024

Using CaSpER with single bulk RNA-Seq sample

Status: Open.

#81 In akdess/CaSpER;

· hkarakurt8742 opened on Dec 26, 2023

CNV score

Status: Open.

#80 In akdess/CaSpER;

· alkurowska opened on Aug 23, 2023

Excluding/keeping reads from normal cells in the bam for BAFExtract

Status: Open.

#79 In akdess/CaSpER;

· kzb193 opened on Jun 9, 2023

runCaSpER error

Status: Open.

#78 In akdess/CaSpER;

· baoyl818 opened on Nov 25, 2022

plotHeatmap function can only show cell ids instead of patient ids (group names)

Status: Open.

#77 In akdess/CaSpER;

· lifan18 opened on Sep 15, 2022