Computational Pipeline Scheme

Summary Somatic mutations and gene fusions can produce immunogenic neoantigens mediating anticancer immune responses. However, their computational prediction from sequencing data requires complex computational workflows to identify tumor-specific aberrations, derive the resulting peptides, infer patients' Human Leukocyte Antigen types and predict neoepitopes binding to them, together with a

This computational framework is easily generalized to other spatial profiling contexts, providing a generic scheme for exploring the interplay of biomolecular and mechanical cues in tissues.

The three pipeline schemes are 1 inter-linear pipeline, 2 inner-layer pipeline, and 3 inter-batch pipeline. Inter-linear pipeline focuses on linear layers inner-layer pipeline focuses on non-linear layers inter-batch pipeline focuses on communication and computation overlaps in different input batches.

A flexible framework for pipeline evaluation. The pipeComp package defines a pipeline as, minimally, a list of functions executed consecutively on the output of the previous one Fig. 1a see also Additional File 2.In addition, optional benchmark functions can be set for each step to provide standardized, multi-layered evaluation metrics.

In this work, a single MAC Multiply-Accumulate based pipelined architecture is proposed for faster computation of the one-dimension 1-D discrete wavelet transform DWT. The main objective of this work is to reduce computational complexity by utilizing resource sharing and to enhance the speed of operation by employing a pipelining scheme.

Llamanade An open-source computational pipeline for robust nanobody humanization. Zhe Sang 1,2,3 Yufei Xiang 1 Ivet Bahar 2,3 Yi Shi 1,3,4 email protected The Martin numbering scheme assigns a number to each amino acid indicating the topological position in structure. After alignment, aligned positions with more than 99 of

The right panel depicts the process of a computational pipeline, Plant-LncPipe, which provides an ensemble method of lncRNA identification and key steps of lncRNA characterization. Li A, Zhang J, Zhou Z. PLEK a tool for predicting long non-coding RNAs and messenger RNAs based on an improved k-mer scheme. BMC Bioinformatics. 201415311

A computational pipeline for spatial computational framework is easily generalized to other spatial proling contexts, providing a generic scheme for exploring the interplay of

Scheme of the computational pipeline for patient-specific brain mechanical model generation and validation. A Example of fetal and neonatal magnetic resonance imaging MRI scans of one subject. Background of fetal and neonatal MRI processing is coloured in blue and yellow, respectively. In this work, we present a computational pipeline

To this end, we introduce SlimPipe, a fine-grained pipeline par-allelism scheme that employs uniform sequence slicing combined with 1F1B scheduling. SlimPipe delivers three key advantages 1 near-zero memory overhead, 2 minimal pipeline bubbles, and 3 enhanced computational efficiency by leveraging its memory-