Pinned Repositories
quast
Genome assembly evaluation tool
bcbio-nextgen
Validated, scalable, community developed variant calling and RNA-seq analysis
bed_annotation
Assign gene names to regions in a BED file
cawdor
Cancer analysis workflow (DNAseq or RNAseq)
devdays
Web-platform for AU Dev Days developed in AU Dev Days
NGS_Utils
Utility functions for bioinformatics projects
oviraptor
Oncoviral integration in cancer whole genome data 🦕
TargQC
Alignment coverage analysis tool
umccrise
Bcbio results umccrization
wdl-workflows
Configuration file templates to run WDL workflows with Cromwell
vladsavelyev's Repositories
vladsavelyev/bed_annotation
Assign gene names to regions in a BED file
vladsavelyev/wdl-workflows
Configuration file templates to run WDL workflows with Cromwell
vladsavelyev/tsvfmt
Tab-separated file viewer for command line
vladsavelyev/bedanno
Assign gene names to regions in a BED file
vladsavelyev/alphaTab
alphaTab is a cross platform music notation and guitar tablature rendering library.
vladsavelyev/awesome-nextflow
A curated list of nextflow based pipelines
vladsavelyev/deeplearning
Learning machine learning
vladsavelyev/gnomad_methods
Hail helper functions for gnomAD/MacArthur lab
vladsavelyev/guitartab
Transformer trained on alphaTex guitar tablatures
vladsavelyev/learn-rust
Learning Rust
vladsavelyev/llama_index
LlamaIndex (GPT Index) is a project that provides a central interface to connect your LLM's with external data.
vladsavelyev/lz-string-python
lz-string for python 2/3
vladsavelyev/lzstring-feedstock
A conda-smithy repository for lzstring.
vladsavelyev/MultiQC
Aggregate results from bioinformatics analyses across many samples into a single report.
vladsavelyev/MultiQC_NGI
MultiQC plugin for the National Genomics Infrastructure in Stockholm, Sweden.
vladsavelyev/MultiQC_TestData
Test data for MultiQC. See https://github.com/ewels/MultiQC
vladsavelyev/murakami
GTP2, fine-tuned to Russian, fine-tuned to generate Russian translations of H. Murakami books
vladsavelyev/nextflow-workflow-catalog
A statically generated catalog of available Nextflow workflows
vladsavelyev/plotly.js
Open-source JavaScript charting library behind Plotly and Dash
vladsavelyev/replit
Trying out replit integration with GitHub
vladsavelyev/rich
Rich is a Python library for rich text and beautiful formatting in the terminal.
vladsavelyev/rnaseq
RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
vladsavelyev/scribepod
Some of the scripts I use for scribepod @ https://scribepod.substack.com/, an automated AI podcast
vladsavelyev/snakemake
This is the development home of the workflow management system Snakemake. For general information, see
vladsavelyev/spack
A flexible package manager that supports multiple versions, configurations, platforms, and compilers.
vladsavelyev/sveltekit-boilerplate
vladsavelyev/text-generation-inference
Large Language Model Text Generation Inference
vladsavelyev/tools
Python package with helper tools for the nf-core community.
vladsavelyev/visual-chatgpt
Official repo for the paper: Visual ChatGPT: Talking, Drawing and Editing with Visual Foundation Models
vladsavelyev/warp
WDL Analysis Research Pipelines