project-diploid-assembly
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ptrebert
Pipeline code for creating a fully haplotype-resolved assembly from a combination of PacBio/ONT long reads and Illumina Strand-seq data
Hello, I am following the helpful tutorial for running the pipeline using demo data on my local machine (Intel iMac). Unfortunately, I am running into a roadblock. Everything seems to...
Hi, I run the pipeline to with ONT and Strand-seq reads of HG002. It leads to this error: > Error in rule minimap_contig_to_known_reference_alignment: jobid: 97 output: output/alignments/contigs_to_reference/reference_assembly/clustered/NA24385_project_nextseq-npe_sseq/NA24385_project_pbrs2-ccs_1000_scV12-flye_map-to_hg38_GCA_p13.psort.sam.bam log: log/output/alignments/contigs_to_reference/reference_assembly/clustered/NA24385_project_nextseq-npe_sseq/NA24385_project_pbrs2-ccs_1000_scV12-flye_map-to_hg38_GCA_p13.minimap.log, log/output/alignments/contigs_to_reference/reference_assembly/clustered/NA24385_project_nextseq-npe_sseq/NA24385_project_pbrs2-ccs_1000_scV12-flye_map-to_hg38_GCA_p13.st-sort.log,...
