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Projects in Awesome Lists tagged with plantgenomics
A curated list of projects in awesome lists tagged with plantgenomics .
https://github.com/gauravcodepro/tairaccession
tairaccession python package for interaction with tair and analyzing arabidopsis genome.
annotation-processor annotation-tool arabidopsis bioinformatics bioinformatics-tool comparative-analysis comparative-genomics genome-analysis genome-annotation phytozome plantgenomes plantgenomics tair3
Last synced: 09 Nov 2024
https://github.com/gauravcodepro/trinity-blast-machine-learning
a scalable and faster implementation for the genome and the transcriptome annotations for large scale sequencing datasets.
bacterial-genome-analysis bacterial-genomes genome-annotation genome-assembly plantgenomes plantgenomics transcriptome-annotation transcriptome-assembly transcriptome-profiling-data transcriptome-wide transcriptomics trinity
Last synced: 09 Nov 2024
https://github.com/gauravcodepro/plant-resistance-gene-logistic-regressor
an application of the logistic regressor for the plant disease resistance genes. Given a fasta file and the corresponding expression file and a motif types which you think are associated with the plant disease resistance, if prepares the classification datasets and then fits a logistic regressor for the model building.
logistic-regression machine-learning machine-learning-algorithms plantdisease plantdiseaseclassification plantdiseasedetection plantgenomes plantgenomics sequence-labeling
Last synced: 09 Nov 2024
https://github.com/gauravcodepro/plant-resistance-gene-fetcher
a custom function to fetch the dna and the protein sequence from the plant resistance gene database and get the corresponding dna_sequence and the protein_sequence.
bioinformatics disease-detection diseaseresistance plantgenomics plantresistance sequence-analysis sequence-labeling
Last synced: 09 Nov 2024
https://github.com/gauravcodepro/plant-resistance_gene_isolator
I coded this function to make a comprehensive gene isolation for the plant resistance genes from the long reads sequencing. Given PacBio or Oxford Nanopore Reads, it will assemble, predict the plant disease resistance genes and will allow you to analyze the mutations in the plant disease resistance genes
bioinformatics bioinformatics-pipeline bioinformatics-tool fungal-effectors fungal-genomes plantdisease plantdiseasedetection plantgenomics planthealth
Last synced: 09 Nov 2024
https://github.com/gauravcodepro/plant-resistance-gene-miner
plant resistance gene miner which uses a regular expression plus a web scrap approach and given a resistance gene id, it will return the genbank id
bioinformatics bioinformatics-analysis genemining plantdisease plantdiseaseclassification plantgenomics resistancegenes
Last synced: 09 Nov 2024
https://github.com/gauravcodepro/ontology-annotation-count
a function to calculate the genome annotation for the microbiome and also for the other genomes. It will take a genome annotation or a text file and will prepare the count and also for the gene ontology analysis
bacterial-genome-analysis bacterial-genomes genome genome-analysis genome-annotation genome-sequencing microbiome microbiome-analysis plantgenomes plantgenomics
Last synced: 09 Nov 2024
https://github.com/gauravcodepro/evolutionary-rate-analyer
A R function for the analysis of the evolutionary rates from the fasta files, and uses the ka/ks and the dn/ds and plots the evolutionary rates.
bacterial-genome-analysis bacterial-genomes bioinformatics evolution evolutionary-computation fungal-genomes fungal-metagenomics plantgenomics rprogramming
Last synced: 09 Nov 2024