Introduction Base omix env task Base r env task Blast ec list extractor Blast to EC-number Annotator Deep ec Deep ec env task Deep ec list extractor DESeq2 pairwise differential analysis ECListMerger Feature Counts Genome by mapping assembly pipeline Gmap align gtf Gmap index GSEA_GO_enrichment HTSeqCount Inter pro scan env task Py gsea env task Salmon index Salmon quant mapping Star index Star mapping genome reads Star mapping transcriptome reads Subread env task Top go2 env task TopGO2_GO_enrichment Trim fq env task TrimGalore cleaning
Technical Documentation
Resources
Tasks
Genome by mapping assembly pipeline
Use sequencing data mapped on reference genome to assembled this unassembled genome
GenomeByMappingAssembly class.
Input
Output
Configuration
threads
Number of threads
int2mapping_quality_filter
Threshold to filter low quality mapped reads (0: No filter, 60: perfectly mapped)
int11chromosome_name
Chromosome name to be assembled
string