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• Category:Pipeline
  8 members (0 subcategories, 0 files) - 15:27, 23 August 2022
• SNP-Pipeline
  |{{#vardefine:app|snp-pipeline}} |{{#vardefine:url|https://github.com/CFSAN-Biostatistics/snp-pipeline}}
  3 KB (306 words) - 17:00, 10 June 2022
• Ssr pipeline
  4 KB (501 words) - 18:55, 6 June 2022

Page text matches

• Geomxngspipeline
  ...in the Configuration File (which is generated from the GeoMx DSP run). The Pipeline processes information from these files and outputs .dcc files, which can th * The pipeline must be run in an interactive session because of an interactive prompt for
  3 KB (332 words) - 17:51, 29 January 2024
• SNP-Pipeline
  |{{#vardefine:app|snp-pipeline}} |{{#vardefine:url|https://github.com/CFSAN-Biostatistics/snp-pipeline}}
  3 KB (306 words) - 17:00, 10 June 2022
• Minia
  |{{#vardefine:url|https://github.com/GATB/gatb-minia-pipeline}} GATB-Minia-Pipeline is a de novo assembly pipeline for Illumina data. It can assemble genomes and metagenomes.
  2 KB (285 words) - 13:31, 15 August 2022
• MGERT
  ...GERT utilizes several established bioinformatic tools combined into single pipeline which hides different technical quirks from an inexperienced user. ....com/articles/10.1186/s13100-019-0163-6 Guliaev AS, Semyenova SK. MGERT: a pipeline to retrieve coding sequences of mobile genetic elements from genome assembl
  3 KB (305 words) - 14:20, 15 September 2020
• SNPhylo
  ...line, SNPhylo, to construct phylogenetic tree based on SNP data. With this pipeline, user can construct a phylogenetic tree from a file containing huge SNP dat Lee, T. H., Guo, H., Wang, X., Kim, C., & Paterson, A. H. (2014). SNPhylo: a pipeline to construct a phylogenetic tree from huge SNP data. BMC Genomics, 15(1).
  3 KB (340 words) - 17:48, 10 June 2022
• PGAP
  [[Category:Pipeline]] The NCBI Prokaryotic Genome Annotation Pipeline is designed to annotate
  3 KB (393 words) - 14:29, 6 July 2022
• Purge haplotigs
  ...er determine the proper assignment of any remaining ambiguous contigs. The pipeline will run on either a haploid assembly (i.e. Canu, FALCON or FALCON-Unzip pr The pipeline is published at BMC Bioinformatics:
  3 KB (356 words) - 20:27, 12 August 2022
• CutRunTools
  This package contains the pipeline for conducting a CUT&RUN analysis. The pipeline comprises of read trimming, alignment steps, motif finding steps, and final
  2 KB (266 words) - 22:20, 26 August 2020
• GOMAP
  ...ogy Meta Annotator for Plants (GOMAP) pipeline. GOMAP is a high-throughput pipeline to annotate GO terms to plant protein sequences.
  2 KB (263 words) - 17:17, 15 August 2022
• MicrobeAnnotator
  Easy-to-use pipeline for the comprehensive metabolic annotation of microbial genomes. ...0-5 MicrobeAnnotator: a user-friendly, comprehensive functional annotation pipeline for microbial genomes]
  2 KB (270 words) - 19:02, 10 October 2022
• Lazypipe
  Lazypipe is a stand-alone pipeline for identifying viruses in host-associated or environmental samples. The ma ...ifying viruses in host-associated or environmental samples. The Unix based pipeline for automated assembling and taxonomic profiling of NGS libraries has been
  4 KB (507 words) - 16:54, 14 December 2022
• RepeatExplorer
  RepeatExplorer is a computational pipeline for discovery and characterization of repetitive sequences in eukaryotic genomes. The pipeline
  2 KB (278 words) - 21:44, 21 August 2022
• Circexplorer3
  A computational pipeline for Circular and Linear RNA Expression Analysis from Ribosomal-RNA depleted Ma XK*, Wang MR, Liu CX, Dong R, Carmichael GG, Chen LL and Yang L#. A CLEAR pipeline for direct comparison of circular and linear RNA expression. 2019, bioRxiv
  2 KB (271 words) - 15:06, 18 January 2023
• MITObim
  The pipeline was originally developed for Illumina data, but thanks to the versatility o [https://academic.oup.com/nar/article/41/13/e129/1129833 MITObim pipeline described in Hahn et al. 2013]
  3 KB (301 words) - 15:20, 22 April 2020
• Unicycler
  ...bly long-read-only sets (PacBio or Nanopore) where it runs a miniasm+Racon pipeline. For the best possible assemblies, give it both Illumina reads and long rea
  2 KB (292 words) - 21:29, 6 December 2019
• Panaroo
  panaroo is a pipeline for pangenome investigation. ...rkhill J. 2020. Producing polished prokaryotic pangenomes with the Panaroo pipeline. Genome Biol 21:180.]
  2 KB (289 words) - 19:33, 13 June 2023
• ZUMIS
  zUMIs is a fast and flexible pipeline to process RNA-seq data with (or without) UMIs. The input to this pipeline is simply fastq files. In the most common cases, you will have a read conta
  2 KB (302 words) - 17:55, 22 August 2022
• Bactopia
  Bactopia is a flexible pipeline for complete analysis of bacterial genomes. The goal of Bactopia is to proc Petit III RA, Read TD, Bactopia: a flexible pipeline for complete analysis of bacterial genomes. mSystems. 5 (2020), https://doi
  2 KB (292 words) - 21:38, 10 January 2023
• Dtiprep
  ...nd preparation. This is both a GUI and command line tool. The configurable pipeline includes image/diffusion information check, padding/Cropping of data, slice
  2 KB (290 words) - 21:50, 27 August 2020
• Radorgminer
  The RADOrgMiner pipeline is designed to genotype sequence tags found in reduced genomic complexity l ...to draw a bright needle out from the haystack -- RADOrgMiner, an automated pipeline to genotype organellar reads from RADseq data. Authorea preprint. September
  3 KB (297 words) - 21:55, 6 July 2022

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