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3 results for “bamfiles”
Bamfiles ChIP-seq
<p>Bamfiles resulting from mapping reads deposited in GEO (Accession GSE121283) to the genome of <em>Fusarium oxysporum</em> f. sp. <em>lycopersici </em>4287 (Fol4287).</p> <p>Adapter sequences were removed and quality scores were converted to Sanger format with the MAQ sol2sanger command if needed. Quality was checked manually using FastQC.</p> <p>Reads were aligned to the genome of Fol4287 using `bwa aln` (bwa version 0.7.12)<br> Duplicate reads were removed with `Picard tools` (version 1.134) (<a href="http://broadinstitute.github.io/picard,">http://broadinstitute.github.io/picard,</a> MarkDuplicates)</p> <p>See <a href="https://doi.org/10.1016/j.fgb.2015.03.006">10.1016/j.fgb.2015.03.006</a> for details on ChIP-seq experiment protocols. This dataset is described in 10.1101/465070. </p>
Bamfiles DNA sequencing reads HCT strain Fo1A and Fo2A
<p>Reads obtained from DNA sequencing of two strains resulting from the horizontal chromosome transfer experiment described in [doi: 10.1038/nature08850] and submitted to ENA [PRJEB29294] . For each strains two paired-end libraries were generated, one with ifragment length of about 170 bp and one with fragmentlength of 500 bp. They were first mapped to the genome of Fo47, unmapped reads were subsequently mapped to the genome of Fol4287, as described in [doi: 10.1101/465070]. Putative PCR duplicates were removed using Picard tools and resulting bamfiles (one for the 170 fragment library and one for the 500 bp fragment library) were merged.</p> <p>These files are the resulting bamfiles.</p> <p>Fo1A_L170_L500.unmapped_to_Fo47illumina.Fol4287broad.bowtie2.sorted_dedup.bam (one chromosome: chr 14)</p> <p>Fo2A_L170_L500.unmapped_to_Fo47illumina.Fol4287broad.bowtie2.sorted_dedup.bam (two chromosomes: chr 14 + small chromosome)</p>
CEH_mock_bamfiles
<p>Bam files from two samples run with MetaScope!</p>
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