Pinned Repositories
CVTree
A whole-genome and alignment-free prokaryotic phylogeny tool
Extract_plasmids
Detect and extract plasmids in fragmented (draft) genomes.
fastq-fastq_stats
fastq-stats_fastq
get_core_proteomes
Get_core_proteomes.py calculates the similarity distances based on k-mers using the core proteomes of species/strains.
post-processing-antismash
Post-process of results in the output folder created by Antismash
PrediPath
PrediPath
python
Sort of scripts created for specific proposes during the elaboration and development of complete pipelines for microbiomes, genomics, and metagenomics sequencing data.
R
R scripts created to specific proposes to make easy my/your life.
snippy
:scissors: :zap: Rapid haploid variant calling and core genome alignment
felipelira's Repositories
felipelira/post-processing-antismash
Post-process of results in the output folder created by Antismash
felipelira/snippy
:scissors: :zap: Rapid haploid variant calling and core genome alignment
felipelira/CVTree
A whole-genome and alignment-free prokaryotic phylogeny tool
felipelira/Extract_plasmids
Detect and extract plasmids in fragmented (draft) genomes.
felipelira/fastq-fastq_stats
felipelira/fastq-stats_fastq
felipelira/get_core_proteomes
Get_core_proteomes.py calculates the similarity distances based on k-mers using the core proteomes of species/strains.
felipelira/PrediPath
PrediPath
felipelira/python
Sort of scripts created for specific proposes during the elaboration and development of complete pipelines for microbiomes, genomics, and metagenomics sequencing data.
felipelira/R
R scripts created to specific proposes to make easy my/your life.
felipelira/files_to_test
Files used to test scripts
felipelira/FriPan
Interactive, web tool for exploring pan-genome of bacterial strains
felipelira/genome_updater
Automatic download and update genome and sequences files from NCBI
felipelira/get_photo
Download photos from Flickr using keywords.
felipelira/get_phylomarkers
A pipeline to select optimal markers for microbial phylogenomics, population genetics and genomic taxonomy
felipelira/get_plasmids
Detect and extract plasmids in fragmented (draft) genomes.
felipelira/ISfinder_database
download isfinder database
felipelira/multifasta2dict
Concatenate multifasta files and create a tabular file containing information about their origins.
felipelira/post_processing_get_homologues
Scripts to process results generated by get_homologues
felipelira/Roary
Rapid large-scale prokaryote pan genome analysis
felipelira/select-seed-seqs
felipelira/SqueezeMeta
A complete pipeline for metagenomic analysis
felipelira/Update_genome_collection
Script to download and update a collection of genomes based on a dynamic list of taxa.