jvollme/PO_2_GENECONTENT

Generate GeneContent trees based on based the presence or absence of Genes from a given bacterial pan-genome using bidirectional BLAST results obtained with proteinortho

Language: Python - Size: 57.6 KB - Last synced: 7 months ago - Pushed: about 5 years ago - Stars: 2 - Forks: 0

PlantDr430/BuscoOrthoPhylo

Wrapper script to concatenate, align, and construct phylogenetic trees of BUSCOs

Language: Python - Size: 43.9 KB - Last synced: 7 months ago - Pushed: over 4 years ago - Stars: 15 - Forks: 4

LorenaDerezanin/SOS-FERT_SV_analysis

Structural variant calling and functional annotation in five mice lines selected for specific traits and a control line.

Language: Python - Size: 1.65 MB - Last synced: 2 months ago - Pushed: almost 2 years ago - Stars: 1 - Forks: 0

TheJacksonLaboratory/canineglioma

Comparative molecular life history of spontaneous canine and human gliomas. Amin et al. Cancer Cell 2020

Language: HTML - Size: 20.4 MB - Last synced: about 1 year ago - Pushed: over 1 year ago - Stars: 4 - Forks: 1

KiranJavkar/PRAWNS

PRAWNS: A fast and scalable bioinformatics tool that generates an efficient pan-genome representation of closely related whole genomes to provide a concise list of genomic features

Language: C++ - Size: 6.7 MB - Last synced: over 1 year ago - Pushed: over 1 year ago - Stars: 6 - Forks: 1

oist/GenomicBreaks

Pairwise Alignment Breakpoint Analysis

Language: R - Size: 15.8 MB - Last synced: 2 months ago - Pushed: 2 months ago - Stars: 3 - Forks: 1

moshi4/plot_genome_align_fig 📦

Plot genome alignment figure using progressiveMauve & genoPlotR

Language: Python - Size: 37 MB - Last synced: about 1 year ago - Pushed: almost 2 years ago - Stars: 16 - Forks: 4

Jtrachsel/pdtools

Functions for working with NCBI's Pathogen Detection data

Language: R - Size: 6.51 MB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 2 - Forks: 0

giffordlabcvr/NCBI-RABV-GLUE

Extension to RABV-GLUE capturing NCBI data.

Language: JavaScript - Size: 60.2 MB - Last synced: 10 months ago - Pushed: about 1 year ago - Stars: 0 - Forks: 0

giffordlabcvr/HEV-GLUE

A GLUE project for Hepatitis E Virus (HEV)

Language: HTML - Size: 13 MB - Last synced: 10 months ago - Pushed: almost 2 years ago - Stars: 0 - Forks: 0

giffordlabcvr/Lentivirus-GLUE

A GLUE project for Lentiviruses (genus Lentivirus)

Language: JavaScript - Size: 44.3 MB - Last synced: 4 months ago - Pushed: 5 months ago - Stars: 0 - Forks: 0

giffordlabcvr/Filovirus-GLUE

A GLUE project for comparative genomic analysis of filoviruses

Language: HTML - Size: 10.1 MB - Last synced: 5 months ago - Pushed: 5 months ago - Stars: 0 - Forks: 0

odenas/indexed_ms

Fast matching statistics in small space

Language: C++ - Size: 31.3 MB - Last synced: 11 months ago - Pushed: over 2 years ago - Stars: 2 - Forks: 1

ohdongha/OrthNet

CLfinder-OrthNet, a pipeline to encode orthologs from multiple genomes and their evolutionary history into networks (OrthNets) based on co-linearity between them. OrthNets enable detection of all orthologous gene groups that share the same evolutionary history, using a search based on network topology

Language: Python - Size: 176 KB - Last synced: 7 months ago - Pushed: almost 2 years ago - Stars: 7 - Forks: 3

rbr7/compgenomics2021

Using un-assembled genome sequence data from the Centers for Disease Control and Prevention (CDC) proceed through five distinct stages of analysis and interpretation of that data: 1-genome assembly, 2-gene prediction, 3-functional annotation, 4-comparative genomics and 5-production of a predictive webserver.

Language: AMPL - Size: 48.8 MB - Last synced: 7 months ago - Pushed: over 2 years ago - Stars: 0 - Forks: 0

giffordlabcvr/RABV-GLUE-WEB

public interactive website layered on top of RABV-GLUE / NCBI-RABV-GLUE projects.

Language: HTML - Size: 1.98 MB - Last synced: 10 months ago - Pushed: over 1 year ago - Stars: 0 - Forks: 0

gmagannaDevelop/Genomique-Comparee

Génomique Comparée (Cours M2 AMI2B Paris-Saclay)

Language: Python - Size: 499 KB - Last synced: about 1 year ago - Pushed: over 2 years ago - Stars: 0 - Forks: 1

pfenninglab/Zoonomia_Cell-TACIT_fine-mapping

Machine learning models of conserved regulatory elements and human genetics of neuropsychiatric traits

Language: Jupyter Notebook - Size: 1.69 GB - Last synced: about 1 year ago - Pushed: over 1 year ago - Stars: 0 - Forks: 1

for-giobbe/BASE

Pronunced /'baze/ - is a tool which allows to integrate non-ubiquitous genes in comparative genomics analyses for selection.

Language: Shell - Size: 3.93 MB - Last synced: about 1 year ago - Pushed: over 2 years ago - Stars: 4 - Forks: 1

giffordlabcvr/COV-GLUE

A GLUE project for SARS-COV2, focused on genetic variation.

Size: 466 MB - Last synced: about 2 months ago - Pushed: almost 3 years ago - Stars: 1 - Forks: 0

docmanny/smRecSearch

Snakemake Implementation of RecSearch featured in "Pervasive duplication of tumor suppressors in Afrotherians during the evolution of large bodies and reduced cancer risk"

Language: HTML - Size: 60.7 MB - Last synced: about 1 year ago - Pushed: almost 3 years ago - Stars: 1 - Forks: 1

ladyson1806/Oskar_Evolution Fork of extavourlab/Oskar_Evolution

Leo Blondel, Savandara Besse, Cassandra Extavour (2021)

Size: 118 MB - Last synced: over 1 year ago - Pushed: almost 3 years ago - Stars: 0 - Forks: 0

zengxiaofei/busco-tree

A pipeline to construct phylogenetic tree using BUSCOs

Language: Python - Size: 17.6 KB - Last synced: 7 months ago - Pushed: almost 6 years ago - Stars: 2 - Forks: 2

laelbarlow/wol_peptide_subsampler

Language: Python - Size: 19.5 KB - Last synced: 5 months ago - Pushed: about 3 years ago - Stars: 0 - Forks: 0

seninp-bioinfo/MetaComp

Toolkit for comparative metagenomics in EDGE

Language: R - Size: 17.5 MB - Last synced: 4 days ago - Pushed: almost 6 years ago - Stars: 3 - Forks: 2

arzwa/py-adhore

Tools for performing I-ADHoRe co-linearity inference and visualization

Language: Python - Size: 10.5 MB - Last synced: over 1 year ago - Pushed: over 3 years ago - Stars: 2 - Forks: 0

SWittouck/lacto_genera

Genome-based taxonomy of Lactobacillaceae on the genus level

Language: R - Size: 78.4 MB - Last synced: about 1 year ago - Pushed: about 4 years ago - Stars: 0 - Forks: 0

SWittouck/lacto_species

Genome-based taxonomy of Lactobacillaceae on the species level

Language: R - Size: 113 MB - Last synced: about 1 year ago - Pushed: about 4 years ago - Stars: 1 - Forks: 1

brettwhitty/bw-msu-tools

Archive of personal scripts repository from my various projects in the Buell Lab at MSU (Jan. 2008 - Apr. 2011)

Language: Perl - Size: 3.76 MB - Last synced: about 1 year ago - Pushed: over 4 years ago - Stars: 0 - Forks: 0

kelkar/Discover_pseudogenes

Discover pseudogenes in a newly assembled genome, using reference gene/protein sequences.

Language: Perl - Size: 8.79 KB - Last synced: over 1 year ago - Pushed: about 7 years ago - Stars: 1 - Forks: 4

clemsciences/alignement_sequence

Code associé à un article dans Linux Magazine n°212 février 2018

Language: Python - Size: 14.6 KB - Last synced: about 1 year ago - Pushed: about 4 years ago - Stars: 3 - Forks: 1

tetsufmbio/eldograph

A tool for comparative genomics analysis that assesses the species relationship considering the phylogenetic distance provided by several gene trees.

Language: Perl - Size: 415 KB - Last synced: over 1 year ago - Pushed: about 7 years ago - Stars: 1 - Forks: 0

hzi-bifo/hmmvis Fork of philippmuench/hmmvis

basic visualization of hmm profile matches to multiple fasta files

Language: Python - Size: 9.66 MB - Last synced: about 1 year ago - Pushed: over 7 years ago - Stars: 0 - Forks: 0