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data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_tximport/tximport_compare.Rscript: a /usr/bin/env Rscript script, ASCII text executable data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_tximport/gene_to_trans.txt: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_tximport/quant_files.list: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_tximport/Makefile: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_tximport/plot_comparison.Rscript: a /usr/bin/env Rscript script, ASCII text executable data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_filter_low_expr/Makefile: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_filter_low_expr/kallisto-trans.TMM.EXPR.matrix: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_GenomeGuidedTrinity/SP2.chr.SE.sam.gz: gzip compressed data, was "SP2.chr.SE.sam", last modified: Tue Mar 12 23:01:49 2013, from Unix, original size modulo 2^32 9358810 data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_GenomeGuidedTrinity/mm9chr17.tophat.bam: Blocked GNU Zip Format (BGZF; gzip compatible), block length 51 data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_GenomeGuidedTrinity/SP2.chr.fa.gz: gzip compressed data, was "SP2.chr.fa", last modified: Fri Jul 27 00:42:33 2012, from Unix, original size modulo 2^32 5672137 data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_GenomeGuidedTrinity/top100k.Right.fq.gz: gzip compressed data, was "top100k.Right.fq", last modified: Sat Oct 16 11:45:03 2010, from Unix, original size modulo 2^32 41640493 data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_GenomeGuidedTrinity/transAligns.cSorted.bam: Blocked GNU Zip Format (BGZF; gzip compatible), block length 1238 data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_GenomeGuidedTrinity/run_genome-guided_Trinity_use_existing_bam.sh: Bourne-Again shell script, ASCII text executable data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_GenomeGuidedTrinity/Makefile: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_GenomeGuidedTrinity/old/__run_genome-guided_Trinity_use_existing_bam.use_SGE.sh: Bourne-Again shell script, ASCII text executable data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_GenomeGuidedTrinity/old/__run_genome-guided_Trinity_use_existing_bam.use_PBS.sh: Bourne-Again shell script, ASCII text executable data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_GenomeGuidedTrinity/old/__run_genome-guided_Trinity_use_existing_bam.use_LSF.sh: Bourne-Again shell script, ASCII text executable data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_GenomeGuidedTrinity/old/run_Schizo_TrinityGG.SE.sh: Bourne-Again shell script, ASCII text executable data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_GenomeGuidedTrinity/old/run_genome-guided_Trinity.sh: Bourne-Again shell script, ASCII text executable data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_GenomeGuidedTrinity/old/run_Schizo_TrinityGG.sh: Bourne-Again shell script, ASCII text executable, with very long lines data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_GenomeGuidedTrinity/old/run_mouse_TrinityGG.sh: Bourne-Again shell script, ASCII text executable data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_GenomeGuidedTrinity/mm9chr17.annotation.bed.gz: gzip compressed data, was "mm9chr17.annotation.bed", last modified: Tue Jul 3 16:42:44 2012, from Unix, original size modulo 2^32 255765 data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_GenomeGuidedTrinity/top100k.Left.fq.gz: gzip compressed data, was "top100k.Left.fq", last modified: Sat Oct 16 11:44:42 2010, from Unix, original size modulo 2^32 41244205 data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_GenomeGuidedTrinity/SP2.chr.bam: Blocked GNU Zip Format (BGZF; gzip compatible), block length 141 data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_GenomeGuidedTrinity/SP2.annot.bed.gz: gzip compressed data, was "SP2.annot.bed", last modified: Fri Jul 27 01:20:47 2012, from Unix, original size modulo 2^32 411704 data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_GenomeGuidedTrinity/cleanme.pl: Perl script text executable data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_GenomeGuidedTrinity/run_Schizo_TrinityGG_jaccard_clip.sh: Bourne-Again shell script, ASCII text executable data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_GenomeGuidedTrinity/top100k.genome.gz: gzip compressed data, was "top100k.genome", last modified: Wed Jul 28 23:18:00 2010, from Unix, original size modulo 2^32 101695 data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_GenomeGuidedTrinity/run_small_GG_mutliScaff_test.sh: Bourne-Again shell script, ASCII text executable data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_GenomeGuidedTrinity/mm9chr17.fasta.gz: gzip compressed data, was "mm9chr17.fasta", last modified: Tue Jul 3 16:35:18 2012, from Unix, original size modulo 2^32 96633699 data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_ExN50/Makefile: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_Glimma/my.counts.matrix: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_Glimma/Makefile: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_Glimma/my.DE_results: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_Glimma/samples.txt: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_InSilicoReadNormalization/Makefile: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_InSilicoReadNormalization/test_PE_normalization.w_base_cov_stats.sh: Bourne-Again shell script, ASCII text executable data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_InSilicoReadNormalization/test_SE_normalization.sh: Bourne-Again shell script, ASCII text executable data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_InSilicoReadNormalization/cleanme.pl: Perl script text executable data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_InSilicoReadNormalization/test_PE_normalization.mult_read_sets.sh: Bourne-Again shell script, ASCII text executable data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_InSilicoReadNormalization/test_PE_normalization.sh: Bourne-Again shell script, ASCII text executable data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Sp_ds.10k.right.fq: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Sp_hs.10k.left.fq: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/reads2.right.fq.gz: gzip compressed data, was "reads2.right.fq", last modified: Mon Jan 27 14:27:19 2014, from Unix, original size modulo 2^32 5907251 data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Trinity.fasta.gene_trans_map: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Sp_plat.10k.left.fq: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Sp_plat.10k.right.fq: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Sp_plat.10k.right.fq.gz: gzip compressed data, was "Sp_plat.10k.right.fq", last modified: Fri Sep 14 15:00:25 2012, from Unix, original size modulo 2^32 1764662 data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Sp_log.10k.left.fq.gz: gzip compressed data, was "Sp_log.10k.left.fq", last modified: Fri Sep 14 14:59:55 2012, from Unix, original size modulo 2^32 1764597 data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Sp_ds.10k.right.fq.gz: gzip compressed data, was "Sp_ds.10k.right.fq", last modified: Fri Sep 14 14:59:27 2012, from Unix, original size modulo 2^32 1764588 data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/candidate.Trinity_trans.TMM.EXPR.matrix: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Sp_log.10k.right.fq: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/reads.right.fa.gz: gzip compressed data, was "reads.right.fa", last modified: Tue Sep 27 18:08:07 2016, from Unix, original size modulo 2^32 3430676 data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/gsnap.cSorted.bam.bai: SAMtools BAI (BAM indexing format), with 555 reference sequences data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Sp_plat.10k.left.fq.gz: gzip compressed data, was "Sp_plat.10k.left.fq", last modified: Fri Sep 14 15:00:13 2012, from Unix, original size modulo 2^32 1764662 data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Sp_ds.10k.left.fq.gz: gzip compressed data, was "Sp_ds.10k.left.fq", last modified: Fri Sep 14 14:59:19 2012, from Unix, original size modulo 2^32 1764588 data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/gsnap.cSorted.bam: Blocked GNU Zip Format (BGZF; gzip compatible), block length 6082 data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Trinity.fasta.gmap/Trinity.fasta.gmap.sarray: Apple DiskCopy 4.2 image Q\003, 1083965696 bytes, 0xc4580000 tag size, 0x1b encoding, 0x7c format data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Trinity.fasta.gmap/Trinity.fasta.gmap.ref133offsets64strm: data data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Trinity.fasta.gmap/Trinity.fasta.gmap.contig.iit: data data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Trinity.fasta.gmap/Trinity.fasta.gmap.chromosome: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Trinity.fasta.gmap/Trinity.fasta.gmap.salcpchilddc: data data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Trinity.fasta.gmap/Trinity.fasta.gmap.version: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Trinity.fasta.gmap/Trinity.fasta.gmap.sachildexc: data data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Trinity.fasta.gmap/Trinity.fasta.gmap.chrsubset: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Trinity.fasta.gmap/Trinity.fasta.gmap.sachildguide1024: data data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Trinity.fasta.gmap/Trinity.fasta.gmap.salcpguide1024: data data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Trinity.fasta.gmap/Trinity.fasta.gmap.contig: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Trinity.fasta.gmap/Trinity.fasta.gmap.ref133offsets64meta: data data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Trinity.fasta.gmap/Trinity.fasta.gmap.ref133positions: data data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Trinity.fasta.gmap/Trinity.fasta.gmap.chromosome.iit: data data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Trinity.fasta.gmap/Trinity.fasta.gmap.genomebits128: data data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Trinity.fasta.gmap/Trinity.fasta.gmap.genomecomp: data data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Trinity.fasta.gmap/Trinity.fasta.gmap.salcpexc: data data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Trinity.fasta.gmap/Trinity.fasta.gmap.saindex64strm: data data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Trinity.fasta.gmap/Trinity.fasta.gmap.saindex64meta: data data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/reads2.left.fq.gz: gzip compressed data, was "reads2.left.fq", last modified: Mon Jan 27 14:27:04 2014, from Unix, original size modulo 2^32 5907251 data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Trinity.fasta: ASCII text, with very long lines data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Sp_log.10k.right.fq.gz: gzip compressed data, was "Sp_log.10k.right.fq", last modified: Fri Sep 14 15:00:03 2012, from Unix, original size modulo 2^32 1764597 data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Sp_hs.10k.right.fq.gz: gzip compressed data, was "Sp_hs.10k.right.fq", last modified: Fri Sep 14 14:59:46 2012, from Unix, original size modulo 2^32 1764675 data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Sp_hs.10k.right.fq: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Sp_log.10k.left.fq: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/reads.left.fa.gz: gzip compressed data, was "reads.left.fa", last modified: Tue Sep 27 18:07:56 2016, from Unix, original size modulo 2^32 3430676 data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/salmon-quasi-trans.isoform.TMM.EXPR.matrix: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/reads.right.fq.gz: gzip compressed data, was "reads.right.fq", last modified: Fri Jun 17 14:04:41 2011, from Unix, original size modulo 2^32 5846101 data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Sp_hs.10k.left.fq.gz: gzip compressed data, was "Sp_hs.10k.left.fq", last modified: Fri Sep 14 14:59:38 2012, from Unix, original size modulo 2^32 1764675 data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/reads.left.fq.gz: gzip compressed data, was "reads.left.fq", last modified: Fri Jun 17 14:04:26 2011, from Unix, original size modulo 2^32 5846101 data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/Sp_ds.10k.left.fq: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/candidate.Trinity_trans.counts.matrix: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DATA/candidate.samples.txt: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_TPM_weighted_gene_length/rsem.isoform.TMM.EXPR.matrix: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_TPM_weighted_gene_length/Trinity.fasta.gene_trans_map: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_TPM_weighted_gene_length/Makefile: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_TPM_weighted_gene_length/Trinity.fasta: ASCII text, with very long lines data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_TPM_weighted_gene_length/Trinity.fasta.seqlens: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DE_analysis/Candida_example/Trinity_trans.counts.matrix: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DE_analysis/Candida_example/Trinity_trans.TPM.not_cross_norm: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DE_analysis/Candida_example/test_PtR_PCA: empty data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DE_analysis/Candida_example/Makefile: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DE_analysis/Candida_example/notes: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DE_analysis/Candida_example/samples.txt: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DE_analysis/Candida_example/Trinity_trans.TMM.EXPR.matrix: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DE_analysis/Candida_example/validate_results.pl: Perl script text executable data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DE_analysis/Makefile: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DE_analysis/Spombe_example/trans.seq.lengths.txt: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DE_analysis/Spombe_example/Trinity_genes.counts.matrix: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DE_analysis/Spombe_example/Trinity_genes.TMM.EXPR.matrix: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DE_analysis/Spombe_example/Makefile: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DE_analysis/Spombe_example/samples.txt: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DE_analysis/Spombe_example/Trinity_genes.lengths: ASCII text data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DE_analysis/Spombe_example/validate_results.pl: Perl script text executable data/trinityrnaseq-2.11.0+dfsg/trinity_ext_sample_data/test_DE_analysis/Spombe_example/Trinotate_report.xls.gene_ontology: ASCII text, with very long lines 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