CaileanCarter/SparCC Fork of dlegor/SparCC

SparCC is a Python module for calculating correlations in compositional data

Language: Python - Size: 38.1 KB - Last synced: 3 months ago - Pushed: 3 months ago - Stars: 0 - Forks: 0

CaileanCarter/EzClermont Fork of nickp60/EzClermont

Phylotype your strains using Clermont's 2013 method: ezclermont.org

Size: 81 MB - Last synced: 8 months ago - Pushed: over 3 years ago - Stars: 0 - Forks: 0

CaileanCarter/escher Fork of zakandrewking/escher

Build, share, and embed visualizations of metabolic pathways.

Size: 27.8 MB - Last synced: 8 months ago - Pushed: about 3 years ago - Stars: 0 - Forks: 0

CaileanCarter/FASTAfromBLAST

Extract FASTA sequences of regions of genome assemblies from NCBI BLAST alignments

Language: Python - Size: 16.6 KB - Last synced: 8 months ago - Pushed: about 3 years ago - Stars: 0 - Forks: 0

CaileanCarter/ST-literature-search

Literature search tool for publications relating to E. coli sequence types

Language: Python - Size: 1.78 MB - Last synced: 8 months ago - Pushed: over 2 years ago - Stars: 1 - Forks: 0

CaileanCarter/UPEC_pop_study_Norfolk

Material for "UPEC Population Structure and Antimicrobial Susceptibility in Norfolk, UK"

Language: Jupyter Notebook - Size: 8.54 MB - Last synced: 8 months ago - Pushed: about 1 year ago - Stars: 0 - Forks: 0

CaileanCarter/Tabular2FASTA

Language: Python - Size: 14.6 KB - Last synced: 8 months ago - Pushed: about 3 years ago - Stars: 0 - Forks: 0

CaileanCarter/VirtualMicrobe 📦

Incomplete real-time metabolic modelling tool

Language: Python - Size: 32.2 KB - Last synced: 8 months ago - Pushed: over 3 years ago - Stars: 0 - Forks: 0

CaileanCarter/tuakit

Toolkit from tuatara

Language: Python - Size: 32.2 KB - Last synced: 8 months ago - Pushed: about 3 years ago - Stars: 0 - Forks: 0

CaileanCarter/scipy-2017-cython-tutorial Fork of kwmsmith/scipy-2017-cython-tutorial

Material for the SciPy 2017 Cython tutorial

Size: 4.3 MB - Last synced: 8 months ago - Pushed: almost 7 years ago - Stars: 0 - Forks: 0

CaileanCarter/short-read-dilutions-calc

A script I use for quickly converting Qubit readings from DNA extractions into dilutions I need for submitting my samples for short read sequencing.

Language: Python - Size: 1.95 KB - Last synced: 8 months ago - Pushed: about 2 years ago - Stars: 0 - Forks: 0

CaileanCarter/tuatara

Reconstruct and handle many genome-scale metabolic models in ScrumPy

Language: Python - Size: 822 KB - Last synced: 8 months ago - Pushed: about 2 years ago - Stars: 6 - Forks: 0

CaileanCarter/LPScanner

Rapid linear programme scanning and batch processing for ScrumPy

Language: Python - Size: 18.6 KB - Last synced: 8 months ago - Pushed: over 2 years ago - Stars: 0 - Forks: 0

CaileanCarter/ScrumPy-Notebook

Learn metabolic modelling and using ScrumPy for modelling.

Language: HTML - Size: 1.52 MB - Last synced: 8 months ago - Pushed: about 2 years ago - Stars: 0 - Forks: 0

CaileanCarter/GPA-Plotter

Plot Roary gene presence/absence results

Language: Python - Size: 16.6 KB - Last synced: 8 months ago - Pushed: about 3 years ago - Stars: 2 - Forks: 0

CaileanCarter/ReAmBaP

Remove ambiguous base pairs from FASTA files

Language: Python - Size: 14.6 KB - Last synced: 8 months ago - Pushed: about 3 years ago - Stars: 0 - Forks: 0

CaileanCarter/Gaussian-elimination

A training script for learning Gaussian elimination

Language: Python - Size: 24.4 KB - Last synced: 8 months ago - Pushed: about 3 years ago - Stars: 0 - Forks: 0

CaileanCarter/RBH_tools

Language: Python - Size: 18.6 KB - Last synced: 8 months ago - Pushed: about 3 years ago - Stars: 0 - Forks: 0

CaileanCarter/Enrichment-Plot

Map gene presence/absence results as metabolic pathways

Language: Python - Size: 23.4 KB - Last synced: 8 months ago - Pushed: almost 3 years ago - Stars: 0 - Forks: 0

CaileanCarter/Cpp-Training

My training scripts for C++

Language: C++ - Size: 22.3 MB - Last synced: 8 months ago - Pushed: about 3 years ago - Stars: 0 - Forks: 0

CaileanCarter/fasta_from_ena

Download FASTA files from ENA using an XML report of a search.

Language: Python - Size: 22.5 KB - Last synced: 8 months ago - Pushed: about 3 years ago - Stars: 0 - Forks: 0

CaileanCarter/EcoliCollection

Scripts used for handling my E coli assemblies collection

Language: Python - Size: 51.8 KB - Last synced: 8 months ago - Pushed: almost 3 years ago - Stars: 0 - Forks: 1

CaileanCarter/CompareSpeciesLists

Language: Python - Size: 1.95 KB - Last synced: 8 months ago - Pushed: about 3 years ago - Stars: 0 - Forks: 0

CaileanCarter/EMBLtoFASTA

Convert EMBL files to FASTA

Language: Python - Size: 16.6 KB - Last synced: 8 months ago - Pushed: about 3 years ago - Stars: 0 - Forks: 0

CaileanCarter/ATPScan

Analysis tools used for scanning ATP production in my E. coli UTI89 model in ScrumPy

Language: Python - Size: 1000 Bytes - Last synced: 8 months ago - Pushed: about 2 years ago - Stars: 0 - Forks: 0

CaileanCarter/AbxRxPro-Legacy 📦

Language: Python - Size: 8.79 KB - Last synced: 8 months ago - Pushed: over 3 years ago - Stars: 0 - Forks: 0

CaileanCarter/ATP-Data-Plot

Visualise ATP over time under antibiotic challenge from the literature

Language: Python - Size: 21.5 KB - Last synced: 8 months ago - Pushed: about 3 years ago - Stars: 0 - Forks: 0

CaileanCarter/AbxRxPro

Visualise your isolate's antibiotic resistance profile

Language: Python - Size: 416 KB - Last synced: 8 months ago - Pushed: over 2 years ago - Stars: 3 - Forks: 0

CaileanCarter/CaileanCarter

Size: 5.86 KB - Last synced: 4 months ago - Pushed: 4 months ago - Stars: 0 - Forks: 0

CaileanCarter/kmerFinder

Language: Python - Size: 17.6 KB - Last synced: 7 months ago - Pushed: about 3 years ago - Stars: 0 - Forks: 0