Q-KIM

Pinned Repositories

AlphaGo
A replication of DeepMind's 2016 Nature publication, "Mastering the game of Go with deep neural networks and tree search," details of which can be found on their website.
Language:JavaScript0 1 00
appliedgenomics2018
Materials for Spring 2018 Applied Genomics Course
Language:Jupyter Notebook0 2 00
ascat
ASCAT copy number R package
Language:R00
ASE_PO
Language:Shell00
awesome-single-cell
List of software packages for single-cell data analysis, including RNA-seq, ATAC-seq, etc.
0 2 00
bioinformatics
Utilities written for bioinformatics
Language:Perl0 2 00
D3E
Discrete Distributional Differential Expression
Language:Python10
ginkgo
Cloud-based single-cell copy-number variation analysis tool
Language:JavaScript10
GTEx
eQTL Detection from GTEx data
Language:Python20

Q-KIM's Repositories

Q-KIM/AlphaGo
A replication of DeepMind's 2016 Nature publication, "Mastering the game of Go with deep neural networks and tree search," details of which can be found on their website.
Language:JavaScript0 1 00
Q-KIM/appliedgenomics2018
Materials for Spring 2018 Applied Genomics Course
Language:Jupyter Notebook0 2 00
Q-KIM/ascat
ASCAT copy number R package
Language:R00
Q-KIM/ASE_PO
Language:Shell00
Q-KIM/awesome-single-cell
List of software packages for single-cell data analysis, including RNA-seq, ATAC-seq, etc.
0 2 00
Q-KIM/bioinformatics
Utilities written for bioinformatics
Language:Perl0 2 00
Q-KIM/bioruby-vcf
Smart VCF parser
Language:Ruby
Q-KIM/ComplexHeatmap
make complex heatmaps as well as self define annotation graphics
Language:R2 0
Q-KIM/eQTL-Brain
eQTL (single and Meta analysis of Brain tissue)
Language:R2 0
Q-KIM/gtex-1
GTEx analysis scripts
Language:Python
Q-KIM/impute
Phasing and imputation of multiple data sets
Language:Shell2 0
Q-KIM/impute-tools
Scripts to facilitate imputation of genotypes and subsequent QC.
Language:Perl2 0
Q-KIM/inferCNV
Inferring CNV from Single-Cell RNA-Seq
Language:R2 0
Q-KIM/leafcutter
LeafCutter: Annotation-free quantification of RNA splicing. Yang I Li, David A Knowles, Jonathan K Pritchard.
Language:C++
Q-KIM/maftools
Summarize, Analyze and Visualize MAF files from TCGA or in house studies.
Language:R2 0
Q-KIM/pan-cancer-drug-response
DrugResponseAnalysis through the pan-cancer view
Language:R2 0
Q-KIM/pcaReduce
Language:R
Q-KIM/PrediXcan
Code for the in-dev PrediXcan Project
Language:HTML2 0
Q-KIM/PyClone
Group project for group 2 in course DD2434 - Machine Learning, Advanced Course at KTH.
Language:Python2 0
Q-KIM/rasqual
Robust Allele Specific Quantification and quality controL
Language:C2 0
Q-KIM/rnaseq_tutorial
Informatics for RNA-seq: A web resource for analysis on the cloud. Educational tutorials and working pipelines for RNA-seq analysis including an introduction to: cloud computing, critical file formats, reference genomes, gene annotation, expression, differential expression, alternative splicing, data visualization, and interpretation.
Language:R2 0
Q-KIM/rPGA
Language:Python2 0
Q-KIM/scLVM
scLVM is a modelling framework for single-cell RNA-seq data that can be used to dissect the observed heterogeneity into different sources, thereby allowing for the correction of confounding sources of variation.
Language:HTML
Q-KIM/scMT-seq
Language:HTML2 0
Q-KIM/SCUMIKit
A pipeline for processing UMI-tagged single cell RNA-Seq data
Language:Shell2 0
Q-KIM/tagteam
Enhanced Social Tagging for Academic Communities
Language:Ruby2 0
Q-KIM/THetA
Tumor Heterogeneity Analysis (THetA) is an algorithm that estimates the tumor purity and clonal/subclonal copy number aberrations directly from high-throughput DNA sequencing data. Please note that the latest release is now called THetA2.
Language:Python
Q-KIM/VarDict
VarDict
Language:Perl2 0
Q-KIM/Viral-Track
Language:R1 0
Q-KIM/WASP
WASP: allele-specific pipeline for unbiased read mapping and molecular QTL discovery
Language:Python