Results for “protein-modeling”
18 skills
k-dense-ai diffdock
Predict 3D binding poses of small molecule ligands to protein targets using diffusion-based molecular docking, supporting single complexes, batch processing, and virtual screening.
30.2k · bundle
neuralblitz advanced-optics-modeling
Advanced Optics Modeling Skill
1 · bundle
jiachen-t-wang lora-low-rank-adaptation-of-large-language-models-arxiv-2106
LoRA: Low-Rank Adaptation of Large Language Models
6
k-dense-ai glycoengineering
Analyze and engineer protein glycosylation by scanning sequences for N-glycosylation sequons, predicting O-glycosylation hotspots, and accessing curated glycoengineering tools for therapeutic antibody optimization and vaccine design.
30.2k · bundle
neuralblitz acoustics-based-modeling
Acoustics Based Modeling Skill
1 · bundle
neuralblitz botany-based-modeling
Botany Based Modeling Skill
1 · bundle
vimalinx hmmscan
Use when searching protein sequences against profile hidden Markov models (HMMs) such as Pfam or other HMM databases.
0 · bundle
vimalinx phmmer
Use when searching one or more protein query sequences against a protein sequence database with HMMER's one-pass sequence-vs-sequence searcher.
0 · bundle
neuralblitz applied-botany-modeling
Applied Botany Modeling Skill
1 · bundle
neuralblitz botany-modeling-expert
Botany Modeling Expert Skill
1 · bundle
levalencia cobrapy
Constraint-based metabolic modeling (COBRA). FBA, FVA, gene knockouts, flux sampling, SBML models, for systems biology and metabolic engineering analysis.
3 · bundle
levalencia matchms
Spectral similarity and compound identification for metabolomics. Use for comparing mass spectra, computing similarity scores (cosine, modified cosine), and identifying unknown compounds from spectral libraries. Best for metabolite identification, spectral matching, library searching. For full LC-MS/MS proteomics pipelines use pyopenms.
3 · bundle
chen-yu-hao cobrapy
Constraint-based metabolic modeling (COBRA). FBA, FVA, gene knockouts, flux sampling, SBML models, for systems biology and metabolic engineering analysis.
5 · bundle
neuralblitz big-data-based-modeling
Big Data Based Modeling Skill
1 · bundle
neuralblitz applied-optics-modeling
Applied Optics Modeling Skill
1 · bundle
jiachen-t-wang scaling-data-constrained-language-models-arxiv-2305-16264v3
Scaling Data-Constrained Language Models
6
smith6jt-cop parameter-scaling
MaxFuse parameter tuning when protein panel size changes (26 → 59+ markers)
3
alterlab-ieu alterlab-pyopenms
Build complete mass-spectrometry workflows with pyOpenMS — feature detection, peptide identification, protein quantification, and full LC-MS/MS pipelines across many MS file formats (mzML, mzXML) and algorithms. Use for comprehensive proteomics and MS data processing — for simple spectral comparison and metabolite identification use matchms. Part of the AlterLab Academic Skills suite.
60 · bundle