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- Pipeline to identify causative mutations responsible for a phenotype.2 KB (236 words) - 16:06, 21 June 2023
- OrthoDB standalone pipeline for delineation of orthologs2 KB (238 words) - 20:03, 31 May 2022
- Description: Eukaryote Non-Model Transcriptome Annotation Pipeline2 KB (236 words) - 21:20, 6 December 2019
- A versatile aligning pipeline for bisulfite sequencing data.2 KB (238 words) - 14:40, 10 June 2022
- Description: a transcriptome assembly and mRNA annotation pipeline2 KB (236 words) - 21:21, 6 December 2019
- Pipeline to generate complete public health microbiology reports from sequenced isol2 KB (241 words) - 19:38, 31 May 2022
- Bioinformatics pipeline for discovery of genetic variants from NGS reads.2 KB (239 words) - 22:07, 21 August 2022
- Phasing and SV Calling Pipeline2 KB (247 words) - 14:42, 10 June 2022
- A computational pipeline for processing Illumina sequence capture data2 KB (246 words) - 21:24, 6 December 2019
- [[Category:Software]][[Category:Biology]][[Category:Pipeline]][[Category:Assembly]]2 KB (245 words) - 20:45, 11 August 2022
- FlowCraft: a component-based pipeline composer for omics analysis using Nextflow. 🐳📦2 KB (246 words) - 14:18, 10 July 2020
- MAGeCKFlute - Integrative analysis pipeline for pooled CRISPR functional genetic screens.2 KB (252 words) - 20:24, 15 August 2022
- Spacemake: pipeline for processing and analysing sequencing based spatial-transcriptomics data2 KB (249 words) - 22:12, 22 September 2022
- A pipeline to identify miRNA binding sites from Ago2-CLIP data by de novo motif findin2 KB (252 words) - 21:21, 6 December 2019
- This pipeline is designed to complete circular bacterial genomes using a sampling strateg2 KB (255 words) - 21:59, 26 August 2020
- Hyb is a bioinformatics pipeline for analysis of CLASH (crosslinking, ligation and sequencing of hybrids) da2 KB (247 words) - 15:07, 10 June 2022
- SqueezeMeta: a fully automated metagenomics pipeline, from reads to bins2 KB (255 words) - 15:47, 28 April 2022
- rnaseqlib is a simple, lightweight pipeline for RNA-Seq analysis.2 KB (247 words) - 15:15, 10 June 2022
- MAGeCK-VISPR is a comprehensive quality control, analysis and visualization pipeline for CRISPR/Cas9 screens build on top of MAGeCK and VISPR.2 KB (251 words) - 20:21, 26 May 2022
- HGTector is a computational pipeline for genome-wide detection of putative horizontal gene transfer (HGT) events2 KB (253 words) - 17:04, 10 October 2022
- Mitofinder is a pipeline to assemble mitochondrial genomes and extract mitochondrial genes from trim2 KB (255 words) - 21:23, 6 December 2019
- Quantas: A pipeline to analyze alternative splicing using RNA-Seq2 KB (247 words) - 20:29, 12 August 2022
- This repository contains an analysis pipeline developed to characterize WGS output2 KB (261 words) - 16:22, 15 March 2023
- Improved bioinformatic pipeline to identify and quantify circRNA expression2 KB (255 words) - 16:51, 30 January 2023
- Toil is a scalable, efficient, cross-platform pipeline management system, written entirely in Python, and designed around the prin2 KB (258 words) - 20:47, 12 August 2022
- Pipeline developed by Mission Bio for the analysis of single-cell sequencing data in2 KB (258 words) - 19:07, 1 June 2022
- CWL-defined pipeline for using IDR to produce a set of peaks given two replicate eCLIP peaks2 KB (254 words) - 18:51, 15 August 2022
- ...r efficient, versatile mapping of mouse brain）is an open source automation pipeline suitable for brain data from different microscopy platforms.2 KB (263 words) - 13:01, 15 August 2022
- |{{#vardefine:url|https://github.com/veg/flea-pipeline}} FLEA is a bioinformatics pipeline for analyzing longitudinal sequencing data from the Pacific Biosciences RS-2 KB (260 words) - 22:01, 27 August 2020
- BRAKER is a pipeline for fully automated prediction of protein coding gene structures with GeneM2 KB (261 words) - 22:28, 26 August 2020
- Denovo Genome Analysis Pipeline for Prokaryotic Species2 KB (272 words) - 21:20, 6 December 2019
- Reginato M. 2022. A pipeline for assembling low-copy nuclear markers from plant genome skimming data for2 KB (256 words) - 21:20, 17 May 2023
- ...and Parallelizable Association Container Toolbox) is a versatile software pipeline to perform various statistical tests for identifying genome-wide associatio2 KB (269 words) - 18:52, 12 August 2022
- The Sashimi project develops the Trans-Proteomic Pipeline (TPP), a mature suite of tools for mass-spec (MS, MS/MS) based proteomics:2 KB (266 words) - 20:22, 24 August 2022
- [[Category:Pipeline]]2 KB (275 words) - 17:53, 15 August 2022
- Connectome Mapper 3 implements a full diffusion MRI processing pipeline that understands BIDS datasets, from raw Diffusion / T1 / T2 data to multi-2 KB (269 words) - 13:55, 15 August 2022
- TAPIS (Transriptome Analysis Pipeline from Isoform Sequencing) is a program for correcting and aligning long read2 KB (273 words) - 16:14, 10 June 2022
- ...link.springer.com/article/10.1007%2Fs12275-021-1154-0 Introducing EzAAI: a pipeline for high throughput calculations of prokaryotic average amino acid identity2 KB (282 words) - 15:13, 15 August 2022
- Shovill is a pipeline which uses SPAdes at its core, but alters the steps before and after the pr2 KB (286 words) - 18:13, 23 August 2022
- Velocyto includes a command line tool and an analysis pipeline2 KB (275 words) - 00:33, 25 May 2023
- CheckV is a fully automated command-line pipeline for assessing the quality of single-contig viral genomes, including identif2 KB (278 words) - 13:58, 18 October 2022
- ...Reconstruction of Complex Structural Variants, or GROC-SVs, is a software pipeline for identifying large-scale structural variants, performing sequence assemb2 KB (274 words) - 21:21, 6 December 2019
- Dragonflye is a pipeline that aims to make assembling Oxford Nanopore reads quick and easy. Still wo2 KB (283 words) - 20:18, 12 April 2022
- ...igh-performance and automatic functional annotation tasks. This Annotation Pipeline allows your to integrate and automate your functional annotation task in a2 KB (282 words) - 20:19, 24 August 2022
- phyloFlash is a pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition o2 KB (279 words) - 00:09, 29 October 2020
- The SeekDeep pipeline is intended for use on targeted amplicon sequencing data for haplotype freq2 KB (281 words) - 17:03, 24 July 2023
- fMRIPrep is a robust and easy-to-use pipeline for preprocessing of diverse fMRI data. The transparent workflow dispenses2 KB (288 words) - 16:47, 17 October 2023
- ShortBRED is a pipeline to take a set of protein sequences, reduce them to a set of unique identify2 KB (287 words) - 16:12, 24 November 2020
- C-WAP is a bash-based bioinformatics pipeline for the analysis of either long-read (ONT or PacBio) or short-read (Illumin2 KB (281 words) - 13:16, 15 August 2022
- FAN-C provides a pipeline for analysing Hi-C data starting at mapped paired-end sequencing reads.2 KB (281 words) - 15:56, 22 March 2024
- CRISPResso2 is a software pipeline designed to enable rapid and intuitive interpretation of genome editing exp2 KB (282 words) - 13:25, 11 October 2022
- This pangenome graph construction pipeline renders a collection of sequences into a pangenome graph (in the variation2 KB (287 words) - 19:56, 6 November 2020
- ...a general-purpose Structure-from-Motion (SfM) and Multi-View Stereo (MVS) pipeline with a graphical and command-line interface. It offers a wide range of feat2 KB (290 words) - 16:53, 6 June 2022
- construction pipeline. The blocks coordinates are output in GFF format and2 KB (284 words) - 20:40, 12 August 2022
- iRAP is a flexible RNA-seq analysis pipeline that allows the user to select and apply their preferred combination of exi2 KB (296 words) - 20:10, 24 August 2022
- CIRIquant is a comprehensive analysis pipeline for circRNA detection and quantification in RNA-Seq data2 KB (275 words) - 15:00, 30 March 2022
- Fast-Plast is a pipeline that leverages existing and novel programs to quickly assemble, orient, and2 KB (288 words) - 20:23, 23 May 2022
- CirComPara2 is a computational pipeline to detect, quantify, and correlate expression of linear and circular RNAs f2 KB (283 words) - 21:36, 1 April 2022
- RiboTaper is a new analysis pipeline for Ribosome Profiling (Ribo-seq) experiments, which exploits the triplet p3 KB (293 words) - 13:48, 20 May 2020
- An automated binning pipeline for single metagenomes, in particular host-associated and highly complex on3 KB (300 words) - 21:19, 6 December 2019
- Galaxy-ML is a web machine learning end-to-end pipeline building framework, with special support to biomedical data.2 KB (284 words) - 14:51, 27 January 2023
- ...genome assembly and mapping. We propose SeqyClean, a specialized cleaning pipeline that alleviates these issues.3 KB (312 words) - 22:41, 21 August 2022
- ...sing Sanger and/or Roche-454 pyrosequencing technologies into contigs. The pipeline gives much higher accuracy in EST assembly than other existing assemblers b3 KB (301 words) - 18:39, 15 August 2022
- MetaLAFFA is a pipeline for annotating shotgun metagenomic data with abundances of functional ortho3 KB (305 words) - 13:52, 23 September 2021
- ...onski K., Metzner K.J., and Beerenwinkel N. 2021. "V-pipe: a computational pipeline for assessing viral genetic diversity from high-throughput sequencing data.3 KB (296 words) - 17:20, 22 August 2022
- ...l should contain the same set of sequences that were input to the original pipeline run, although the order will not be preserved. The FASTQs will be emitted i3 KB (318 words) - 13:56, 8 March 2021
- PoPoolation is a pipeline for analysing pooled next generation sequencing data. Currently PoPoolation3 KB (321 words) - 21:23, 6 December 2019
- The tbprofiler pipeline aligns reads to the H37Rv reference using bowtie2, BWA or minimap2 and then3 KB (312 words) - 21:31, 10 February 2023
- SQANTI is a pipeline for the in-depth characterization of isoforms obtained by full-length trans3 KB (321 words) - 21:24, 6 December 2019
- ProtHint is a pipeline for predicting and scoring hints (in the form of3 KB (329 words) - 20:27, 12 August 2022
- Roary is a high speed stand alone pan genome pipeline, which takes annotated assemblies in GFF3 format (produced by Prokka (Seema3 KB (308 words) - 17:13, 10 June 2022
- ...ies, and can generate much longer repeats than existing tools. The overall pipeline is shown in the mannual file. REPdenovo supports the following main functio3 KB (327 words) - 21:43, 21 August 2022
- A genome assembly correction and scaffolding pipeline using long reads, consisting of up to three steps:3 KB (314 words) - 19:00, 10 October 2022
- ...s from gene therapy vector production after NGS sequencing. This automated pipeline can however be used for wider purpose requiring to identify map NGS dataset3 KB (309 words) - 20:40, 10 June 2022
- PBJelly is a highly automated pipeline that aligns long sequencing reads3 KB (309 words) - 17:07, 21 August 2022
- ...eference genome for comparison. It can be used in any stage of an assembly pipeline to automatically break incorrect scaffolds and flag other errors in an asse3 KB (320 words) - 21:35, 21 August 2022
- An Automated Phylogenomic Inference Pipeline for Bacterial and Archaeal Sequences.3 KB (315 words) - 14:44, 10 July 2023
- ...bly, in addition to using the reference annotation. Necklace is a software pipeline to run genome-guided and de novo assembly and combine the resulting transcr3 KB (312 words) - 21:22, 6 December 2019
- ...pyrpipe_engine module to integrate any other third-party program in their pipeline.3 KB (311 words) - 15:22, 16 March 2020
- This document is intended to give a technical description of the FEELnc pipeline in order to annotate long non-coding RNAs (lncRNAs) based on reconstructed3 KB (322 words) - 18:53, 10 July 2020
- ...to a model's development and performance. Integrating the MCT into your ML pipeline enables the sharing model metadata and metrics with researchers, developers3 KB (333 words) - 15:31, 10 July 2023
- ...h serves as a standalone assembly polisher, it is also part of an assembly pipeline which includes an ultrafast nanopore assembler Shasta and a multi-task RNN3 KB (320 words) - 21:22, 6 December 2019
- FGMP (Fungal Genome Mapping Project) is a bioinformatic pipeline designed to provide in an unbiased manner an estimation of genome completen3 KB (326 words) - 21:20, 6 December 2019
- Methylpy, a pyhton-based analysis pipeline for3 KB (309 words) - 21:21, 6 December 2019
- ...draft genomes assemblies in real-time with Oxford Nanopore sequencing. The pipeline can run on a computing cluster as well as on a laptop computer for microbia3 KB (326 words) - 14:29, 4 September 2020
- CCMetagen is a pipeline to classify organisms in metagenomes or metatranscriptomes accurately.3 KB (327 words) - 22:45, 3 January 2022
- Crossmapper is an automated bioinformatics pipeline for asessing the rate of read crossmapping when two or more organisms are s3 KB (326 words) - 17:40, 31 January 2022
- An Automated Phylogenomic Inference Pipeline for Bacterial and Archaeal Sequences.3 KB (333 words) - 17:35, 10 June 2022
- ...so that new contributions can be easily inserted into an existing assembly pipeline. This modular design will foster the development of new assembly algorithms3 KB (344 words) - 12:41, 12 August 2022
- A technology-agnostic long-read analysis pipeline for transcriptome discovery and quantification. Dana Wyman, Gabriela Balder3 KB (321 words) - 15:13, 23 September 2022
- ...of the number of processing steps that need to be applied in a particular pipeline, greatly improving runtime performance.3 KB (345 words) - 21:20, 6 December 2019
- *PDB2PQR: an automated pipeline for the setup of Poisson-Boltzmann electrostatics calculations. Dolinsky TJ3 KB (336 words) - 17:51, 15 August 2022
- included a batched ligand pipeline developed by Aaron Scheinberg from3 KB (332 words) - 15:25, 12 August 2022
- ...ent, analysis tools and runs the script line by line. Users can change the pipeline or fine-tune the parameters by modifying its configuration file. SeqMule al3 KB (342 words) - 19:06, 15 September 2022
- finder is a gene annotator pipeline which automates the process of3 KB (345 words) - 16:42, 15 August 2022
- ...st error checking identifies problems sooner; flexible identifiers improve pipeline design and management3 KB (356 words) - 17:44, 22 August 2022
- HapDup (haplotype duplicator) is a pipeline to convert a haploid long read assembly into a dual diploid assembly. The r3 KB (324 words) - 21:07, 7 April 2022
- HM2 is an easy-to-use automated pipeline for improving geneome assembly in the post-assembly stage. It consists of a3 KB (339 words) - 19:05, 12 August 2022
- The Hapsembler pipeline is described in contain three main stages:3 KB (332 words) - 18:15, 15 August 2022
- ...mble human-sized genomes on commodity clusters in under a day. The process pipeline implements a highly transparent and portable model of job control and monit3 KB (354 words) - 18:36, 10 June 2022