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test_trinity:
./runMe.sh
test: test_assembly test_bowtie_PE_read_estimates
test_assembly:
./runMe.sh
./misc_run_tests/__test_runMe_include_normalization.sh
./misc_run_tests/__runMe_with_qual_trimming.sh
./misc_run_tests/__runMe_with_qual_trimming_and_normalization.sh
./misc_run_tests/__test_runMe_with_jaccard_clip.sh
./misc_run_tests/__runMe_with_qual_trimming_and_normalize_libs_separately.sh
./misc_run_tests/__runMe_include_long_reads.sh
test_bowtie_PE_read_estimates:
../../util/bowtie_PE_separate_then_join.pl --seqType fq --left reads.left.fq --right reads.right.fq --target trinity_out_dir/Trinity.fasta --aligner bowtie
../../util/SAM_nameSorted_to_uniq_count_stats.pl bowtie_out/bowtie_out.nameSorted.bam
test_full:
./runMe.sh 1
clean:
./cleanme.pl
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