Pinned Repositories
10X_fasta_to_gfa
auto_clone
A Python based server for making Gibson cloning a little faster
doSameSpeciesLiftOver_nextflow
A NextFlow pipeline to lift over GFF3 files using the UCSC liftover tools
funannotate
Eukaryotic Genome Annotation Pipeline
guppy_gpu_singularity
A Singularity file intended for SingularityHub, for the Oxford Nanopore Technologies guppy gpu caller. Based off https://hub.docker.com/r/genomicpariscentre/guppy/dockerfile
photocyte.github.io
Personal website, built with hydejack
plot_mitochondrial_genome_with_CIRCOS
repeatModeler2_nf
Nextflow workflow to easily run RepeatModeler with conda and singularity
photocyte's Repositories
photocyte/doSameSpeciesLiftOver_nextflow
A NextFlow pipeline to lift over GFF3 files using the UCSC liftover tools
photocyte/photocyte.github.io
Personal website, built with hydejack
photocyte/funannotate
Eukaryotic Genome Annotation Pipeline
photocyte/InterPro_API_domain_toolkit
A wrapper around some simple Python scripts, to query the InterPro API with respect to fetching domains
photocyte/bioconda-recipes
Conda recipes for the bioconda channel.
photocyte/bioconvert
Bioconvert is a collaborative project to facilitate the interconversion of life science data from one format to another.
photocyte/bioicons
A library of free open source icons for science illustrations in biology and chemistry
photocyte/bioregistry
📮 An integrative registry of biological databases, ontologies, and nomenclatures.
photocyte/blobtoolkit
Nextflow pipeline for BlobToolKit for Sanger ToL production suite
photocyte/flo
Same species annotation lift over pipeline.
photocyte/foam
Foam low-code for coders app development framework
photocyte/frame-codebase
The complete codebase for Frame
photocyte/g2p_mapper
photocyte/general_scripts
photocyte/gffkit
A lightweight python toolkit for common manipulations on GFF3 files
photocyte/gffutils
GFF and GTF file manipulation and interconversion
photocyte/git-tracked-analysis-template
A template for spinning up a new folder that can be tracked with git and exported as a .zip to Zenodo
photocyte/HQAlign
photocyte/infernal_rfam.nf
A nextflow workflow for running infernal with Rfam profiles against a genome FASTA
photocyte/interproscan_parallel
A Nextflow pipeline that wraps InterProScan , including making it parallelized & doing some plotting
photocyte/labop
Protocol Activity Modeling Language
photocyte/linkml-project-cookiecutter
A cookiecutter for linkml projects. An equivalent of `linkml-ws new project-name`.
photocyte/mosh-static
Static builds of mosh-server
photocyte/nf_utility
A set of utility scripts for use as modules in Nextflow
photocyte/OrthoFinder
Accurate inference of orthologous gene groups made easy. "OrthoFinder: solving fundamental biases in whole genome comparisons dramatically improves orthologous gene group inference accuracy"
photocyte/PPYR_OGS
Official Geneset (OGS) for Photinus pyralis, at least until I figure out a long term alternative
photocyte/pySBOL3
Native python implementation of SBOL 3.0 specification
photocyte/seqkit
A cross-platform and ultrafast toolkit for FASTA/Q file manipulation
photocyte/statements
Successful Job Applications and Grants
photocyte/taskwarrior-reminders
Synchronize Taskwarrior with iOS Reminders