Hi-MyDays

AmpliconClassifier

Classify output of AmpliconArchitect to detect types of focal amplifications present

bwa

Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)

CHM13

The complete sequence of a human genome

ConsensusTME

ConsensusTME Gene Sets and R Script

cufflinks

gatk

Official code repository for GATK versions 4 and up

gatk4-somatic-cnvs

This repo is archived, these workflows will be housed in the GATK repository under the scripts directory. These workflows are also organized in Dockstore in the GATK Best Practices Workflows collection.

gatk4-somatic-snvs-indels

This repo has been archived, these workflows are still available in the GATK repository under the scripts directory. The workflows are also organized in Dockstore in the GATK Best Practices Workflows collection.

GLASS

GLASS consortium

juncBASE

Junction Based Analysis of Splicing Events for RNA-Seq

Hi-MyDays/AmpliconClassifier

Classify output of AmpliconArchitect to detect types of focal amplifications present

Hi-MyDays/bwa

Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)

Hi-MyDays/CHM13

The complete sequence of a human genome

Hi-MyDays/ConsensusTME

ConsensusTME Gene Sets and R Script

Hi-MyDays/cufflinks

Hi-MyDays/gatk

Official code repository for GATK versions 4 and up

Hi-MyDays/gatk4-somatic-cnvs

This repo is archived, these workflows will be housed in the GATK repository under the scripts directory. These workflows are also organized in Dockstore in the GATK Best Practices Workflows collection.

Hi-MyDays/gatk4-somatic-snvs-indels

This repo has been archived, these workflows are still available in the GATK repository under the scripts directory. The workflows are also organized in Dockstore in the GATK Best Practices Workflows collection.

Hi-MyDays/GLASS

GLASS consortium

Hi-MyDays/juncBASE

Junction Based Analysis of Splicing Events for RNA-Seq

Hi-MyDays/learn-wdl

Educational materials for learning WDL

Hi-MyDays/MISO

MISO: Mixture of Isoforms model for RNA-Seq isoform quantitation

Hi-MyDays/PRADA2

Hi-MyDays/pyclone

Probabilistic model for inferring clonal population structure from deep NGS sequencing.

Hi-MyDays/RSEM

RSEM: accurate quantification of gene and isoform expression from RNA-Seq data

Hi-MyDays/scCNAutils

Functions to analyze copy number aberrations in single-cell data

Hi-MyDays/TcellExTRECT

Hi-MyDays/trinityrnaseq

Trinity RNA-Seq de novo transcriptome assembly

Hi-MyDays/xCell

Cell types enrichment analysis