Pinned Repositories
Absence-Aware-Clustering
amazon-ebs-autoscale
Don't run out of disk space on your EC2 instance when generating or working with large files. Automatically add EBS volumes to a filesystem mount point in response to disk utilization.
arvados
An open source platform for managing and analyzing biomedical big data
bcbio_validation_workflows
A community menagarie of automated variant validations using bcbio and the Common Workflow Language
Cheatsheets
cloneman
Package to parse CNV segments files from various methods, and create objects with clonal information for tumor samples
cnv_facets
Somatic copy variant caller (CNV) for next generation sequencing
cnvstrmliner
Parsers and functions for visualization of CNV segments
convertChrNames
quick script to convert the chromosome names between various naming schemes.
cwl-tes
cwl-tes submits your tasks to a TES server. Task submission is parallelized when possible.
kmavrommatis's Repositories
kmavrommatis/cwl-tes
cwl-tes submits your tasks to a TES server. Task submission is parallelized when possible.
kmavrommatis/Absence-Aware-Clustering
kmavrommatis/amazon-ebs-autoscale
Don't run out of disk space on your EC2 instance when generating or working with large files. Automatically add EBS volumes to a filesystem mount point in response to disk utilization.
kmavrommatis/arvados
An open source platform for managing and analyzing biomedical big data
kmavrommatis/bcbio_validation_workflows
A community menagarie of automated variant validations using bcbio and the Common Workflow Language
kmavrommatis/Cheatsheets
kmavrommatis/cloneman
Package to parse CNV segments files from various methods, and create objects with clonal information for tumor samples
kmavrommatis/cnvstrmliner
Parsers and functions for visualization of CNV segments
kmavrommatis/convertChrNames
quick script to convert the chromosome names between various naming schemes.
kmavrommatis/cwltool
Common Workflow Language reference implementation
kmavrommatis/docker
docker files and wiki
kmavrommatis/easyalluvial
create alluvial plots with a single line of code
kmavrommatis/FastClone_GuanLab
kmavrommatis/funnel
Funnel is a toolkit for distributed task execution via a simple, standard API.
kmavrommatis/ideafix
method to rank mutations for FFPE artifacts using RF/XGboost models
kmavrommatis/kraken2
The second version of the Kraken taxonomic sequence classification system
kmavrommatis/Pausepred_offline
This repository provides the scripts for the PausePred tool. The PausePred is designed to predict translational halts using ribosome footprint density information obtained from ribosomal profiling data.
kmavrommatis/silva-138_classifiers
Classifiers trained on different variable regions of Prokaryotic 16S rRNA genes
kmavrommatis/spartan
SPecific Accurate rRNA & tRNA ANnotation software
kmavrommatis/vcf2maf
Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms