johnurban Goto Github PK
Name: John Urban
Type: User
Location: Baltimore, MD
Name: John Urban
Type: User
Location: Baltimore, MD
Script for figuring out AMPure ratios needed for size selection, etc.
AutoPiloT : Automated Pilon Tool. Index, map, filter, polish. Repeat.
Code I used/created to analyze bar-seq data.
An automated pipeline for genome assembly evaluations using SLURM.
Toying around with MACS2 calcMaxDupTags model.
Scripts and data needed to reproduce Mass Spec results in CLAMP paper
Various utilities while working with Hi-C data, bedpe, and bed files.
Tools for working with fast5 files (nanopore data).
A simple python script to work with 2-column tables and do some FFT stuff.
An R-script with attempts to provide some common layouts for figure making.
Long-reads Gap-free Chromosome-scale Assembler
geckos need to be shut down
Convert minimap2 transcript alignments to GFF gene models for pleasant viewing in genome browsers like IGV.
Takes JSON output from InterProScan computed on large proteome file, and outputs all or targeted proteins as individual JSON files for viewing with EBIs JSON viewer.
One or more scripts for working with the outputs of interproscan.
Here is code from that pper.
Genomics tinkering and plotting functions in R.
Contains notes and custom scripts used to analyze Illumina reads for our NS-seq paper.
MACS -- Model-based Analysis of ChIP-Seq
A restriction map aligner
Assembly QV metrics based on fast alignments of a representative sample of reads.
Additional tools for analyzing Oxford Nanopore minION data
a toolkit for working with Oxford nanopore data
HMM approaches to genomic and other data. Originally designed to identify DNA "puffs for FISH" in the fungus fly genome.
racoonFlyFish: Automated multi-round genome assembly polishing with long reads using combinations of RaCon, Flye, and Medaka.
Tool for querying Fly Atlas 2.
Sciara (pronunciation: Sci as in "Science", "ara" as in Sahara, i.e. Sigh-ara)
A declarative, efficient, and flexible JavaScript library for building user interfaces.
🖖 Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.
TypeScript is a superset of JavaScript that compiles to clean JavaScript output.
An Open Source Machine Learning Framework for Everyone
The Web framework for perfectionists with deadlines.
A PHP framework for web artisans
Bring data to life with SVG, Canvas and HTML. 📊📈🎉
JavaScript (JS) is a lightweight interpreted programming language with first-class functions.
Some thing interesting about web. New door for the world.
A server is a program made to process requests and deliver data to clients.
Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.
Some thing interesting about visualization, use data art
Some thing interesting about game, make everyone happy.
We are working to build community through open source technology. NB: members must have two-factor auth.
Open source projects and samples from Microsoft.
Google ❤️ Open Source for everyone.
Alibaba Open Source for everyone
Data-Driven Documents codes.
China tencent open source team.