Workflows

NGS : Filtrer fastq reads with N (1)

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Filter FastQ file and delete sequences with N

Created: 2014-02-27 | Last updated: 2014-06-10

Credits: Ylebras

Population genomics : Structure and CLUMPP (1)

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Population genomics analysis using Structure and Clumpp to cluster data

Created: 2014-02-27 | Last updated: 2014-06-10

Credits: Ylebras

NGS : FastQ Quality check and FastQ manipu... (1)

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Taking FastQ reads, apply FastQ groomer on sequences and generate Quality reports (FastQC, Summary statistics, boxplots) before and after filter

Created: 2014-02-27 | Last updated: 2014-06-10

Credits: Ylebras

Tuto Galaxy 2013 : CPB2012 - BasicProtocol... (1)

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Workflow used when applying the CPB2012 Basic Protocol 1 tutorial from Galaxy team. It permits to filter Exons with the most SNP density.

Created: 2014-02-27 | Last updated: 2014-06-10

Credits: Ylebras

NGS : Pair reads assembly with Velvet Work... (1)

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Paired-end reads assembly after fastQ groomer using a Migale (France INRA core facility https://migale.jouy.inra.fr/) modified version of Velvet tool suite descriptors

Created: 2014-02-27 | Last updated: 2014-06-10

Credits: Ylebras

Tuto Galaxy 2013 : CPB2012 - BasicProtocol... (1)

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Workflow used when applying the CPB2012 Basic Protocol 3 tutorial from Galaxy team. It calls peaks for ChIP-seq data using MACS14.

Created: 2014-02-27 | Last updated: 2014-06-10

Credits: Ylebras

Variant discovery and reference correction... (1)

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Created: 2013-05-14 | Last updated: 2013-05-14

Credits: Robsyme

RTTS Mapper (1)

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Generates RTTS counts file from SAM file. Output consists of three columns: counts at given position;chromosome;position(0 based). Workflow removes untemplated nucleotides from 5' ends of the reads. Authors: Jeppe Vinther, Lukasz Kielpinski Workflow published by lukaszkielpinski on Galaxy Jun 26, 2012 imported to myExperiment Jul 17, 2012 during demonstration of Galaxy-myExperiment integration (specifically generating SVG and showing steps of more complex workflow).

Created: 2012-07-17 | Last updated: 2012-07-17

Transform 'Stitch Gene blocks' FASTA block... (1)

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Converts FASTA blocks to a FASTA file. Workflow published by galaxyproject on Galaxy Jun 27, 2012 imported to myExperiment Jul16, 2012 during demonstration of Galaxy-myExperiment integration  https://main.g2.bx.psu.edu/u/galaxyproject/w/transform-stitch-gene-blocks-fasta-blocks-to-standardized-fasta-file

Created: 2012-07-16 | Last updated: 2012-07-16

Basic Illumina Reads Quality (Functional G... (1)

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From the RNA-Seq analysis tutorial during the Functional Genomics Workshop 2012 https://caps.osu.edu/pfg-workshop Workflow published by mejia-guerra on Galaxy Jun 22, 2012 imported to myExperiment Jul16, 2012 during demonstration of Galaxy-myExperiment integration

Created: 2012-07-16 | Last updated: 2012-07-16