amvarani Goto Github PK
Name: Alessandro Varani
Type: User
Alessandro Varani's Projects
biocode
Bioinformatics code libraries and scripts
blsom
Batch SOM for Nucleotides
clinker
Gene cluster comparison figure generator
conda
OS-agnostic, system-level binary package manager and ecosystem
dante
Domain based annotation of transposable elements
dupgen_finder
A pipeline used to identify different modes of duplicated gene pairs
evidencemodeler
source code for EVM
fungap
FunGAP: fungal Genome Annotation Pipeline
hayai-annotation-plants
R-package for an Ultra-Fast and Comprehensive Gene Annotation in Plants
hic-pipeline
A pipeline for scaffolding a genome assembly using Hi-C
hic_tools
A collection of tools for Hi-C data analysis
hifiasm
Hifiasm: a haplotype-resolved assembler for accurate Hifi reads
irys-scaffolding
scripts to parse IrysView output
jcvi
Python library to facilitate genome assembly, annotation, and comparative genomics
jupiterplot
A Circos-based tool to visualize genome assembly consistency
jupyterplot
Create real-time plots in Jupyter Notebooks.
mg2c
A user-friendly online tool for drawing genetic maps
mogece
Mobile Genetic Elements Coordinates Extractor
mumandco
MUM&Co is a simple bash script that uses Whole Genome Alignment information provided by MUMmer (only v4) to detect Structural Variation
ncbi-genome-download
Scripts to download genomes from the NCBI FTP servers
pasapipeline
PASA software
pgap
NCBI Prokaryotic Genome Annotation Pipeline
plant_annotation
Plant Genome Annotation Methods and Recipes - Structural Gene Annotation
plant_annotation_tes
Methods and recipes for Plant Genome Annotation - Transposable Elements
prokka
:zap: :aquarius: Rapid prokaryotic genome annotation
pseudohaploid
Create a pseudohaploid assembly from a partially resolved diploid assembly
scripts_for_gb
The code used in the manuscript titled "Gene duplication and evolution in recurring polyploidization-diploidization cycles in plants".
shinycircos
an R/shiny application for creation of Circos plot interactively
shinyheatmap
Web application for enormous biological heatmaps
smudgeplot
Inference of ploidy and heterozygosity structure using whole genome sequencing data
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