MutFold | Human breast cancer associated mutant protein structure prediction and alignment application
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Updated
Dec 12, 2023 - Jupyter Notebook
MutFold | Human breast cancer associated mutant protein structure prediction and alignment application
Benchmark the performance of sequence alignment workflows
Protein alignment using gap penalty traceback with the Blosum62 Matrix
FASTA Alignment search for BsaI and BsmBI restriction sites in the ORF6 protein to verify assertions made by Bruttel, et. al. in "Endonuclease fingerprint indicates a synthetic origin of SARS-CoV-2."
compleasm genome coverage analysis using awk
stitching coding regions from exon alignments for the protein to genome alignments.
genome and transcriptome alignment extraction
formatting paf output alignments and plotting the paf alignments stats
maf to panache and extracting all snps and pangenome specific information.
Flexible protein alignment using Protein Units
miniprot protein analyzer
intergenic region analyzer from protein alignments to draft genomes.
protein alignment gem from alignment to graphs
Implementation of the Combinatorial Extension (cealign) algorithm to align protein structures
miniprot protein alignment analyzer
maf alignments from protein to genome alignments using awk
Pipeline plugins for PALADIN, providing HPC support, abundance (taxonomy, go terms), customized reports, etc
For viewing, analyzing, and generating figures of protein sequence alignments.
Protein Alignment and Detection Interface
ProTrek: Navigating the Protein Universe through Tri-Modal Contrastive Learning
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