analogiks's repositories
AEGIS
MHC-II presentation predictor
AIOC
Ham Radio All-in-one-Cable
augraphy
Augmentation pipeline for rendering synthetic paper printing, faxing, scanning and copy machine processes
bedtools2
bedtools - the swiss army knife for genome arithmetic
BERN2
BERN2: an advanced neural biomedical namedentity recognition and normalization tool
bigmhc
BigMHC is a deep learning tool for predicting MHC-I (neo)epitope presentation and immunogenicity
DataProfiler
What's in your data? Extract schema, statistics and entities from datasets
deepdoctection
A Repo For Document AI
deephlapan
A deep learning approach for predicting high-confidence neoantigens by considering both the presentation possibilities of mutant peptides and the potential immunogenicity of pMHC
dont-hold-your-breath
Breathing analysis with Polar H10 Heart Rate Monitor
ente
Fully open source, End to End Encrypted alternative to Google Photos and Apple Photos
epitopeprediction
A bioinformatics best-practice analysis pipeline for epitope prediction and annotation
FABind
FABind: Fast and Accurate Protein-Ligand Binding (NeurIPS 2023)
hisat2
Graph-based alignment (Hierarchical Graph FM index)
labelmm
The next Generation of Annotation Tools
mudskipper
A tool for projecting genomic alignments to transcriptomic coordinates
NetTCR-2.2
Sequence-based prediction of peptide-TCR interactions using paired chain data
OpenELM
Evolution Through Large Models
pepsickle
A context aware tool for proteasomal cleavage predictions
peptides.py
Physicochemical properties, indices and descriptors for amino-acid sequences.
RSEM
RSEM: accurate quantification of gene and isoform expression from RNA-Seq data
samtools
Tools (written in C using htslib) for manipulating next-generation sequencing data
Seq2Neo
Seq2Neo: a comprehensive pipeline for cancer neoantigen immunogenicity prediction
STAR
RNA-seq aligner
stringtie
Transcript assembly and quantification for RNA-Seq
trinityrnaseq
Trinity RNA-Seq de novo transcriptome assembly
vcf2maf
Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms