WIP: Checkpoint snakefile
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- 10ce73e6 - updated rules and workflows for running assembly with spades and mmseq comparisons
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- 87b28001 - updated mmseq plot scripts - working finally
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- f37ddcf7 - included scripts for mmseq plotting with metaspades
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- 73dd1bc8 - fixed awk error in the mmseq prepare files script
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- b97e0104 - fixed the metaspades overlap with mmseq plotting
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- 0b5d4048 - created new ANALYSIS_RULES and workflow for incorporating the cd-hit and quast analyses
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- 1ad79bf6 - updated the overal snakefiles including the with the ANALYSIS_RULES
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- ecdc09d4 - adding the script for coverage plots and the PLOT RULES created by CCL
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- 9cdb8210 - added rules for mappability_index and estimating unique_mapped_reads from BAM files
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- f0e70006 - added the CRISPR related environments, rules and modified the workflows and...
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