Pinned Repositories
Forked_repo
basic walk-throughs for alignment and variant calling from NGS sequencing data
AeQTL
airflow
Apache Airflow
amazon-ec2-user-guide-windows
The open source version of the Amazon EC2 User Guide for Windows. To submit feedback or requests for changes, submit an issue or make changes and submit a pull request.
AMPL
The ATOM Modeling PipeLine (AMPL) is an open-source, modular, extensible software pipeline for building and sharing models to advance in silico drug discovery.
Cell-Proportions
ClinicalGradeDNAseq
Automated next generation DNA sequencing analysis pipeline suited for clinical tests, with >99.9% sensitivity to Sanger sequencing at read-depth>18
GWA_tutorial
A comprehensive tutorial about GWAS and PRS
machine_learning_edu
Machine learning education
Sequencing-projects
akhileshkaushal's Repositories
akhileshkaushal/amazon-ec2-user-guide-windows
The open source version of the Amazon EC2 User Guide for Windows. To submit feedback or requests for changes, submit an issue or make changes and submit a pull request.
akhileshkaushal/AMPL
The ATOM Modeling PipeLine (AMPL) is an open-source, modular, extensible software pipeline for building and sharing models to advance in silico drug discovery.
akhileshkaushal/Cell-Proportions
akhileshkaushal/aws-cli
Universal Command Line Interface for Amazon Web Services
akhileshkaushal/btllib
Bioinformatics Technology Lab common code library
akhileshkaushal/cellphonedb
akhileshkaushal/CITE-seq_optimization
Code and results from TotalSeqC antibody titration and pipeline benchmarking for CITE-seq experiments
akhileshkaushal/DRAGMAP
DRAGEN open-source mapper
akhileshkaushal/Forked_repo
akhileshkaushal/gatk-docs
Documentation archive for GATK tools and workflows
akhileshkaushal/goldrush
Linear-time de novo Long Read Assembler
akhileshkaushal/immunarch
immunarch: An R Package for Painless Bioinformatics Analysis of T-cell and B-cell Immune Repertoire Data
akhileshkaushal/infinityFlow
akhileshkaushal/LongStitch
Correct and scaffold assemblies using long reads
akhileshkaushal/Metabolomics-I
Untargeted LC/MS-based metabolomics data analysis.
akhileshkaushal/mirna
microRNA profiling pipeline
akhileshkaushal/MOFA2
Multi-Omics Factor Analysis V2 (MOFA+)
akhileshkaushal/MsdialWorkbench
Universal workbench incorporating msdial, msfinder, and mrmprobs
akhileshkaushal/ntEdit
✏️ Genome assembly polishing & SNV detection
akhileshkaushal/oktoberfest
Rescoring and spectral library generation pipeline for proteomics.
akhileshkaushal/pori_python
akhileshkaushal/prosit
Prosit offers high quality MS2 predicted spectra for any organism and protease as well as iRT prediction. When using Prosit is helpful for your research, please cite "Gessulat, Schmidt et al. 2019" DOI 10.1038/s41592-019-0426-7
akhileshkaushal/pwiz
The ProteoWizard Library is a set of software libraries and tools for rapid development of mass spectrometry and proteomic data analysis software.
akhileshkaushal/RNA-Bloom
:hibiscus: reference-free transcriptome assembly for short and long reads
akhileshkaushal/RNA-Scoop
:shipit: interactive visualization of single-cell transcriptomes
akhileshkaushal/scRNAseq_Benchmark
Bench-marking classification tools for scRNA-seq data
akhileshkaushal/skylab
Secondary analysis pipelines
akhileshkaushal/SnapATAC
Analysis Pipeline for Single Cell ATAC-seq
akhileshkaushal/SpliceAI
A deep learning-based tool to identify splice variants
akhileshkaushal/transabyss
de novo assembly of RNA-seq data using ABySS