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Transcritomics : eQTL after data extractio... (1)

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Format raw files from Feature extraction output (Agilent array matrix file) to have individual in columns and genes in rows

Created: 2014-03-04 | Last updated: 2014-06-10

Credits: Ylebras

NGS : RNAseq workflow part 1 from Tophat t... (1)

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Remove duplicates from Tophat BAM output files and filter

Created: 2014-03-04 | Last updated: 2014-06-10

Credits: Ylebras

NGS : Mini assembly from FastQ files using... (1)

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Assemble FastQ reads with minia

Created: 2014-02-28 | Last updated: 2014-06-10

Credits: Ylebras

NGS : Filter contamination in raw reads by ID (1)

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Filter FastQ sequences by ID

Created: 2014-02-28 | Last updated: 2014-06-10

Credits: Ylebras

NGS : Bowtie2 using built-in genome to dep... (1)

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Reads mapping using a built-in genome from your history, then generate pileup, base coverage, depth of coverage and summary statistics

Created: 2014-02-28 | Last updated: 2014-06-10

Credits: Ylebras

NGS : Bowtie2 with a genome in fasta forma... (1)

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Reads mapping using a reference genome in fasta format from your history, then generate pileup, base coverage, depth of coverage and summary statistics

Created: 2014-02-28 | Last updated: 2014-06-10

Credits: Ylebras

NGS : Coverage determination and visualiza... (1)

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From a BAM file and a reference genome fasta file, calculate the depth of coverage and generate pileup, interval, Base coverage as Summary statistics

Created: 2014-02-28 | Last updated: 2014-06-10

Credits: Ylebras

NGS : flanking SNP regions (1)

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Flank SNP regions using interval format file and a fasta reference file

Created: 2014-02-28 | Last updated: 2014-06-10

Credits: Ylebras

Population genomics : From Blast xml forma... (1)

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Parse Blast XML results to obtain species specifics sequences

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

Credits: Ylebras

NGS : RNA-seq differential expression anal... (1)

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Analyse paired-end RNA-seq reads of 2 different individuals with FastQC, Tophat2, Cufflinks and Cuffdiff using a reference annotation in gtf format

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

Credits: Ylebras