Pinned Repositories
CanSig
Discovering de novo shared transcriptional programs in single cancer cells
CHIPIN
ChIP-seq Intersample Normalization
FREEC
Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data
HMCan
LILY
Detection of super-enhancers in cancer data
Multi-omics-noise-resistance
More data, more problems? On noise resistance in multi-omics cancer survival models
ONCOCNV
ONCOCNV - a package to detect copy number changes in Targeted Deep Sequencing and Exome-seq data
survboard
SV-Bay
Detection of structural variants in cancer mate-pair and paired-end data
Teaching
Teaching materials
Boeva Lab, ETH Zurich's Repositories
BoevaLab/FREEC
Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data
BoevaLab/ONCOCNV
ONCOCNV - a package to detect copy number changes in Targeted Deep Sequencing and Exome-seq data
BoevaLab/LILY
Detection of super-enhancers in cancer data
BoevaLab/CanSig
Discovering de novo shared transcriptional programs in single cancer cells
BoevaLab/SV-Bay
Detection of structural variants in cancer mate-pair and paired-end data
BoevaLab/CHIPIN
ChIP-seq Intersample Normalization
BoevaLab/HMCan
BoevaLab/Multi-omics-noise-resistance
More data, more problems? On noise resistance in multi-omics cancer survival models
BoevaLab/survboard
BoevaLab/latte
Data analysis of latent representations
BoevaLab/Teaching
Teaching materials
BoevaLab/sparsesurv
BoevaLab/CanSig-Supplementary-Information
This repository supplements the CanSig tool (https://github.com/boevaLab/cansig), providing additional information on performed experiments.
BoevaLab/CIMP_etiology_oncogenic_transformation
Supporting code for the analysis in "Deciphering the etiology and role in oncogenic transformation of the CpG island methylator phenotype (CIMP): a pan-cancer analysis
BoevaLab/Group_Lasso_and_Multitask
BoevaLab/infercnvpy
Infer copy number variation (CNV) from scRNA-seq data. Plays nicely with Scanpy.
BoevaLab/MasterTF
BoevaLab/SplatterSim
a package to simulate cancer single cells with joint CNV profiles based on Splatter
BoevaLab/TFCox
Tensorflow implementation of the Cox Proportional Hazards model
BoevaLab/ANS_supplementary_information
BoevaLab/CanSig-integration
BoevaLab/CRCPolyp
Supporting code for Identification of early DNA methylation field cancerization in normal colonic mucosa in patients with adenomas and neoplastic lesions
BoevaLab/MTRNA-sc-cancer
Repository containing all the code necessary for reproducing the paper "Filtering cells with high mitochondrial content removes viable metabolically altered malignant cell populations in cancer single-cell studies" (Yates, Kraft, and Boeva)
BoevaLab/Multi-task-Side-Channel
BoevaLab/ACCanalysisCode
Code for the CIMP in ACC paper
BoevaLab/HongzheLabro
This is the code collection for Hongzhe Li's Lab rotation project
BoevaLab/nsclc_patterns
BoevaLab/QuantumClone
Clonal reconstruction from HTS data
BoevaLab/scalop
Single Cell Analysis Operations
BoevaLab/sci