davised
Senior Bioinformatics Scientist in the Center for Quantitative Life Sciences at Oregon State University (he/him)
Oregon State UniversityCorvallis, OR
Pinned Repositories
AGAT
Another Gtf/Gff Analysis Toolkit
alv
A console-based alignment viewer
automlsa2
Automated Multi-Locus Sequence Analysis phylogenetic tree construction software
automlsa2-examples
Example datasets for automlsa2 script.
bakta
Rapid & standardized annotation of bacterial genomes & plasmids
BASTA
Basic Sequence Taxonomy Annotator
Bracken
Bracken (Bayesian Reestimation of Abundance with KrakEN) is a highly accurate statistical method that computes the abundance of species in DNA sequences from a metagenomics sample.
get_assemblies
Download assembly files from NCBI
moore-2021-acetone
Acetone monooxygenase (SAR11_0845) homolog analysis using Tara metatranscriptome data
seqIO_extract
davised's Repositories
davised/get_assemblies
Download assembly files from NCBI
davised/automlsa2
Automated Multi-Locus Sequence Analysis phylogenetic tree construction software
davised/automlsa2-examples
Example datasets for automlsa2 script.
davised/moore-2021-acetone
Acetone monooxygenase (SAR11_0845) homolog analysis using Tara metatranscriptome data
davised/AGAT
Another Gtf/Gff Analysis Toolkit
davised/alv
A console-based alignment viewer
davised/bakta
Rapid & standardized annotation of bacterial genomes & plasmids
davised/BASTA
Basic Sequence Taxonomy Annotator
davised/Bracken
Bracken (Bayesian Reestimation of Abundance with KrakEN) is a highly accurate statistical method that computes the abundance of species in DNA sequences from a metagenomics sample.
davised/btop
A monitor of resources
davised/Claatu
davised/clinker
Gene cluster comparison figure generator
davised/cv
davised/davis-2022-ZAM
Analysis for the Davis et al 2022 PLOS ZAM study.
davised/drep
Rapid comparison and dereplication of genomes
davised/FAMSA
Algorithm for ultra-scale multiple sequence alignments (3M protein sequences in 5 minutes and 24 GB of RAM)
davised/funannotate
Eukaryotic Genome Annotation Pipeline
davised/git-cheat-sheet
:octocat: git and git flow cheat sheet
davised/HBH-2021
Hypoxic barrier hypothesis manuscript data analysis
davised/MITObim
MITObim - mitochondrial baiting and iterative mapping
davised/primerclip
Swift Accel-Amplicon primer trimming tool for fast alignment-based primer trimming
davised/qrcode.show
[WORKING PROTOTYPE] Generate QR code easily for free - QR Code Generation as a Service
davised/r-pilot
A minimal ggplot2 theme with an accessible discrete color palette.
davised/Ray
davised/rich
Rich is a Python library for rich text and beautiful formatting in the terminal.
davised/SequenceBouncer
A Python3 script for removal of outlier sequences from a multiple sequence alignment (FASTA format).
davised/spack
A flexible package manager that supports multiple versions, configurations, platforms, and compilers.
davised/starcli
:sparkles: Browse trending GitHub projects from your command line
davised/superspreadingdispersion
davised/vire
Vim / Neovim installer and vimrc + plugin manager