Ichthyophonus de novo (Fish 546)

This record includes files that resulted from <em>de novo</em> assembly of short read (Illumina PE100) genomic data from the parasite<em> Ichthyophonus</em>. I would like to acknowledge K. Nichols for supplying the data for this analysis. Files included in this data set: <strong>Ichthlyophonus de novo (Fish546).pdf; </strong>Presentation giving overview of project and summary results. <strong>AssemblyParameters.pdf; </strong>Software settings for CLC and SOAPdenovo assemblers. <strong>11186ContigSummary.csv; </strong>Tablular data for contig length and coverage from CLC assembly. <strong>SoapContigSummary.csv; </strong>Tabular data for contig length and coverage from SOAPdenovo assembly. <strong>CLC_Choanoflagellate_Blast_GO_Annot...csv; </strong>Blast results from annotated Choanoflagellate genome query on <em>Ichthyophonus</em> contig database from CLC. File is a merger of blast results and annotation table. <strong>CLC_Fungi_Blast_GO_Annotations.csv; </strong>Blast results from annotated Fungal genome query on <em>Ichthyophonus</em> contig database from CLC. File is a merger of blast results and annotation table. <strong>CLC_Metazoa_Blast_GO_Annotations.csv; </strong>Blast results from annotated Metazoan genome query on <em>Ichthyophonus</em> contig database from CLC. File is a merger of blast results and annotation table. <strong>SOAP_Choanoflagellate_Blast_GO_Anno...csv; </strong>Blast results from annotated Choanoflagellate genome query on <em>Ichthyophonus</em> contig database from SOAP. File is a merger of blast results and annotation table. <strong>SOAP_Fungi_Blast_GO_Annotations.csv; </strong>Blast results from annotated Fungal genome query on <em>Ichthyophonus</em> contig database from SOAP. File is a merger of blast results and annotation table. <strong>SOAP_Metazoan_Blast_GO_Annotations.csv; </strong>Blast results from annotated Metazoan genome query on <em>Ichthyophonus</em> contig database from SOAP. File is a merger of blast results and annotation table. <strong>CLC_OpenReadingFrames.bed</strong><strong>;</strong> Bed file with putative Open Reading Frames from the CLC assembly, produced by EMBOSS "getorf" funcion, implemented in Galaxy. <strong>SNP_RestrictionBed.bed;</strong> Bed file with putative SNP sites, produce by converting .gff SNP file from CLC assembly. <strong>Choanoflagellate_Blast.bed;</strong> Bed file of Choanoflagellate blast hits, converted from CLC blast output file above. <strong>Fungi_Blast.bed;</strong> Bed file of Fungal blast hits, converted from CLC blast output above. <strong>Metazoa_Blast.bed; </strong>Bed file of Metazoan blast hits, converted from CLC blast output above. <strong>igv_snapshot.png; </strong>Example of blast hits, SNPs and restriction enzyme sites displayed in Integrated Genomic Viewer.