![[ICO]](/icons/blank.gif){kind=icon}
![[PARENTDIR]](/icons/back.gif){kind=icon}
![[DIR]](/icons/folder.gif){kind=icon}
![[ ]](/icons/p.gif){kind=icon}
![[TXT]](/icons/text.gif){kind=icon}
![[ ]](/icons/unknown.gif){kind=icon}
| Name | Last modified | Size | Description |
|---|---|---|---|---|
| Parent Directory | - | ||
| Artemis/ | 2022-03-11 09:18 | - | |
| ButterflyFastaToGrap..> | 2022-03-11 09:18 | 1.7K | |
| HiCpipe_nameSortedSa..> | 2022-03-11 09:18 | 2.3K | |
| Monarch | 2022-03-11 09:18 | 8.7K | |
| Monarch_util/ | 2022-03-11 09:18 | - | |
| N50.pl | 2022-03-11 09:18 | 895 | |
| PerlLib/ | 2022-03-11 09:18 | - | |
| SAM_coordsorted_max_..> | 2022-03-11 09:18 | 1.0K | |
| SAM_intron_extractor.pl | 2022-03-11 09:18 | 3.5K | |
| SAM_nameSorted_to_un..> | 2022-03-11 09:18 | 7.5K | |
| SAM_pair_to_bed.pl | 2022-03-11 09:18 | 1.9K | |
| SAM_show_alignment.pl | 2022-03-11 09:18 | 7.4K | |
| SAM_show_alignment.s..> | 2022-03-11 09:18 | 4.0K | |
| SAM_sortAny_to_count..> | 2022-03-11 09:18 | 4.3K | |
| SAM_toString.pl | 2022-03-11 09:18 | 1.0K | |
| SAM_to_bed.pl | 2022-03-11 09:18 | 1.5K | |
| SAM_to_fasta.pl | 2022-03-11 09:18 | 700 | |
| SRA_to_fastq.notes | 2022-03-11 09:18 | 77 | |
| SRA_to_fastq.pl | 2022-03-11 09:18 | 1.6K | |
| TEST_SUPPORT/ | 2022-03-11 09:18 | - | |
| TPM_weighted_gene_le..> | 2022-03-11 09:18 | 4.6K | |
| TophatCufflinksWrapp..> | 2022-03-11 09:18 | 4.8K | |
| Trinity_genome_align..> | 2022-03-11 09:18 | 9.4K | |
| Trinity_node_seq_ext..> | 2022-03-11 09:18 | 1.9K | |
| acc_list_to_fasta_en..> | 2022-03-11 09:18 | 4.5K | |
| alexie_analyze_blast.pl | 2022-03-11 09:18 | 35K | |
| align_reads_launch_i..> | 2022-03-11 09:18 | 1.2K | |
| allele_simulator.pl | 2022-03-11 09:18 | 2.1K | |
| alt_GG_read_partitio..> | 2022-03-11 09:18 | - | |
| altsplice_simulation..> | 2022-03-11 09:18 | - | |
| analyze_blastPlus_to..> | 2022-03-11 09:18 | 2.6K | |
| analyze_blastPlus_to..> | 2022-03-11 09:18 | 5.9K | |
| analyze_blastPlus_to..> | 2022-03-11 09:18 | 2.1K | |
| analyze_blastPlus_to..> | 2022-03-11 09:18 | 1.2K | |
| average.pl | 2022-03-11 09:18 | 804 | |
| bam_gene_tests/ | 2022-03-11 09:18 | - | |
| blast_outfmt6_group_..> | 2022-03-11 09:18 | 4.8K | |
| blast_outfmt6_group_..> | 2022-03-11 09:18 | 4.3K | |
| blast_outfmt6_group_..> | 2022-03-11 09:18 | 3.0K | |
| blastn_wrapper.pl | 2022-03-11 09:18 | 627 | |
| blat_util/ | 2022-03-11 09:18 | - | |
| capture_orig_n_unmap..> | 2022-03-11 09:18 | 5.5K | |
| cat_require_newlines.pl | 2022-03-11 09:18 | 223 | |
| cdhit_examine_isofor..> | 2022-03-11 09:18 | 1.3K | |
| cdna_fasta_file_to_t..> | 2022-03-11 09:18 | 768 | |
| check_chrysalis_grap..> | 2022-03-11 09:18 | 1.0K | |
| check_fastQ_pair_ord..> | 2022-03-11 09:18 | 1.4K | |
| chrys_graph_to_dot.pl | 2022-03-11 09:18 | 492 | |
| collate_fqs.pl | 2022-03-11 09:18 | 3.7K | |
| combined_nameSorted_..> | 2022-03-11 09:18 | 2.7K | |
| compare_FL_stats.pl | 2022-03-11 09:18 | 1.3K | |
| compare_bflies.pl | 2022-03-11 09:18 | 1.9K | |
| component_to_graph_d..> | 2022-03-11 09:18 | 4.0K | |
| contig_ExN50_statist..> | 2022-03-11 09:18 | 4.0K | |
| convert_fasta_identi..> | 2022-03-11 09:18 | 685 | |
| count_N50_given_MIN_..> | 2022-03-11 09:18 | 1.7K | |
| count_features_given..> | 2022-03-11 09:18 | 769 | |
| count_iso_per_gene_d..> | 2022-03-11 09:18 | 668 | |
| count_matrix_feature..> | 2022-03-11 09:18 | 877 | |
| count_number_fasta_s..> | 2022-03-11 09:18 | 348 | |
| count_trans_per_comp..> | 2022-03-11 09:18 | 1.1K | |
| decode_SAM_flag_valu..> | 2022-03-11 09:18 | 1.6K | |
| describe_SAM_read_fl..> | 2022-03-11 09:18 | 2.0K | |
| determine_RF_strand_..> | 2022-03-11 09:18 | 2.4K | |
| ensure_paired_end_ba..> | 2022-03-11 09:18 | 936 | |
| examine_iworm_FL_acr..> | 2022-03-11 09:18 | 2.4K | |
| examine_strand_speci..> | 2022-03-11 09:18 | 2.7K | |
| examine_weldmer_halv..> | 2022-03-11 09:18 | 2.3K | |
| extract_fastQ_pairin..> | 2022-03-11 09:18 | 6.5K | |
| fan_out_fasta_seqs_t..> | 2022-03-11 09:18 | 2.6K | |
| fastQ_append_acc.pl | 2022-03-11 09:18 | 739 | |
| fastQ_rand_subset.SE..> | 2022-03-11 09:18 | 2.4K | |
| fastQ_rand_subset.pl | 2022-03-11 09:18 | 2.7K | |
| fastQ_rand_subset.re..> | 2022-03-11 09:18 | 3.3K | |
| fastQ_top_N_records.pl | 2022-03-11 09:18 | 644 | |
| fasta_file_reformatt..> | 2022-03-11 09:18 | 464 | |
| fasta_filter_by_min_..> | 2022-03-11 09:18 | 558 | |
| fasta_remove_duplica..> | 2022-03-11 09:18 | 679 | |
| fasta_seq_length.pl | 2022-03-11 09:18 | 509 | |
| fasta_to_cmd_generat..> | 2022-03-11 09:18 | 3.2K | |
| fasta_write_sense_n_..> | 2022-03-11 09:18 | 632 | |
| fastq_cleaner.pl | 2022-03-11 09:18 | 1.5K | |
| fastq_interleave_pai..> | 2022-03-11 09:18 | 1.3K | |
| fastq_merge_sorted_t..> | 2022-03-11 09:18 | 2.1K | |
| fastq_stats.pl | 2022-03-11 09:18 | 6.6K | |
| fastq_unweave_pairs.pl | 2022-03-11 09:18 | 1.2K | |
| filter_out_accs_from..> | 2022-03-11 09:18 | 1.1K | |
| filter_similar_seqs_..> | 2022-03-11 09:18 | 7.8K | |
| flattened_gff_n_geno..> | 2022-03-11 09:18 | 4.5K | |
| frag_boundary_to_wig.pl | 2022-03-11 09:18 | 1.2K | |
| frag_to_bed.pl | 2022-03-11 09:18 | 483 | |
| gene_gff3_to_introns.pl | 2022-03-11 09:18 | 1.9K | |
| gene_to_shared_trans..> | 2022-03-11 09:18 | 2.0K | |
| genome_gff3_to_gene_..> | 2022-03-11 09:18 | 3.1K | |
| get_GC_content_dist.pl | 2022-03-11 09:18 | 1.5K | |
| get_longest_isoform_..> | 2022-03-11 09:18 | 1.7K | |
| get_path_nodes_from_..> | 2022-03-11 09:18 | 647 | |
| get_welds_from_chrys..> | 2022-03-11 09:18 | 391 | |
| gff3_file_to_cdna.pl | 2022-03-11 09:18 | 3.0K | |
| gff3_file_utr_covera..> | 2022-03-11 09:18 | 6.7K | |
| gff3_to_genome_featu..> | 2022-03-11 09:18 | 4.5K | |
| gff3_to_genome_featu..> | 2022-03-11 09:18 | 2.5K | |
| gmap_gff3_chimera_ja..> | 2022-03-11 09:18 | 4.7K | |
| gmap_gff3_to_percent..> | 2022-03-11 09:18 | 1.0K | |
| gmap_gff3_to_percent..> | 2022-03-11 09:18 | 1.8K | |
| gmap_native_to_forma..> | 2022-03-11 09:18 | 1.9K | |
| gtf_to_bed_format.pl | 2022-03-11 09:18 | 1.8K | |
| gtf_to_introns.pl | 2022-03-11 09:18 | 3.0K | |
| hicpipe_raw_converte..> | 2022-03-11 09:18 | 353 | |
| identify_distal_isof..> | 2022-03-11 09:18 | 4.6K | |
| illustrate_ref_compa..> | 2022-03-11 09:18 | 4.7K | |
| insilico_norm_kmer_h..> | 2022-03-11 09:18 | - | |
| iso_reco_analysis/ | 2022-03-11 09:18 | - | |
| iworm_welds_to_dot.pl | 2022-03-11 09:18 | 575 | |
| jaccard_sam_pair_ref..> | 2022-03-11 09:18 | 2.7K | |
| join_any.pl | 2022-03-11 09:18 | 828 | |
| join_by_left_col.pl | 2022-03-11 09:18 | 827 | |
| join_expr_vals_singl..> | 2022-03-11 09:18 | 929 | |
| kmer_counter.pl | 2022-03-11 09:18 | 1.0K | |
| m8_blastclust.pl | 2022-03-11 09:18 | 6.4K | |
| map_gtf_transcripts_..> | 2022-03-11 09:18 | 16K | |
| merge_RSEM_output_to..> | 2022-03-11 09:18 | 3.0K | |
| merge_blast_n_rsem_r..> | 2022-03-11 09:18 | 1.4K | |
| merge_rsem_n_express..> | 2022-03-11 09:18 | 1.9K | |
| mpi_iworm_proc_conti..> | 2022-03-11 09:18 | 358 | |
| nameSorted_SAM_to_Fa..> | 2022-03-11 09:18 | 1.7K | |
| nameSorted_SAM_to_pa..> | 2022-03-11 09:18 | 4.0K | |
| omp_iworm_thread_con..> | 2022-03-11 09:18 | 556 | |
| organize_data_table_..> | 2022-03-11 09:18 | 439 | |
| pair_up_fastq_files_..> | 2022-03-11 09:18 | 491 | |
| pair_up_fastq_files_..> | 2022-03-11 09:18 | 584 | |
| pair_up_fastq_files_..> | 2022-03-11 09:18 | 606 | |
| pairwise_kmer_conten..> | 2022-03-11 09:18 | 1.8K | |
| plot_ExN50_statistic..> | 2022-03-11 09:18 | 783 | |
| plot_expressed_gene_..> | 2022-03-11 09:18 | 857 | |
| plot_strand_specific..> | 2022-03-11 09:18 | 5.2K | |
| print.pl | 2022-03-11 09:18 | 867 | |
| print_kmers.pl | 2022-03-11 09:18 | 640 | |
| process_GMAP_alignme..> | 2022-03-11 09:18 | 3.7K | |
| process_minimap2_ali..> | 2022-03-11 09:18 | 2.4K | |
| prop_pair_sam_refine..> | 2022-03-11 09:18 | 1.9K | |
| randomly_mutate_seqs.pl | 2022-03-11 09:18 | 4.1K | |
| randomly_sample_PE_f..> | 2022-03-11 09:18 | 3.1K | |
| remove_cntrl_chars.pl | 2022-03-11 09:18 | 105 | |
| row_to_column.pl | 2022-03-11 09:18 | 306 | |
| run_DETONATE.pl | 2022-03-11 09:18 | 2.3K | |
| run_GSNAP.pl | 2022-03-11 09:18 | 4.2K | |
| run_HISAT.pl | 2022-03-11 09:18 | 4.8K | |
| run_HISAT2_via_sampl..> | 2022-03-11 09:18 | 3.9K | |
| run_HiCpipe_bowtie.pl | 2022-03-11 09:18 | 1.2K | |
| run_STAR.pl | 2022-03-11 09:18 | 5.9K | |
| run_STAR_via_samples..> | 2022-03-11 09:18 | 6.3K | |
| run_TOPHAT.pl | 2022-03-11 09:18 | 1.8K | |
| run_bowtie2.pl | 2022-03-11 09:18 | 1.8K | |
| run_bwa.pl | 2022-03-11 09:18 | 3.2K | |
| run_bwasw_trinity.pl | 2022-03-11 09:18 | 1.1K | |
| run_jellyfish.pl | 2023-09-16 13:52 | 1.7K | |
| run_jellyfish.pl.bak | 2023-09-16 13:40 | 1.4K | |
| run_read_simulator_p..> | 2022-03-11 09:18 | 1.7K | |
| run_read_simulator_p..> | 2022-03-11 09:18 | 2.2K | |
| run_trimmomatic_qual..> | 2022-03-11 09:18 | 2.1K | |
| seqinfo_refseq_to_do..> | 2022-03-11 09:18 | 4.1K | |
| shuffle.pl | 2022-03-11 09:18 | 212 | |
| sim_test_framework/ | 2022-03-11 09:18 | - | |
| simulate_illuminaPE_..> | 2022-03-11 09:18 | 9.1K | |
| simulate_illuminaPE_..> | 2022-03-11 09:18 | 4.0K | |
| simulate_reads_sam_a..> | 2022-03-11 09:18 | 23K | |
| sixFrameTranslation.pl | 2022-03-11 09:18 | 780 | |
| sort_fastq.pl | 2022-03-11 09:18 | 1.2K | |
| splice_path_analysis/ | 2022-03-11 09:18 | - | |
| strip_fasta_header.pl | 2022-03-11 09:18 | 442 | |
| tab_to_fastQ.pl | 2022-03-11 09:18 | 282 | |
| tab_to_fasta.pl | 2022-03-11 09:18 | 278 | |
| tblastn_wrapper.pl | 2022-03-11 09:18 | 628 | |
| testUnlimitStacksize.pl | 2022-03-11 09:18 | 1.8K | |
| transcript_coverage_..> | 2022-03-11 09:18 | 4.5K | |
| transcript_fasta_to_..> | 2022-03-11 09:18 | 5.7K | |
| transcript_gff3_to_b..> | 2022-03-11 09:18 | 2.0K | |
| transdecoder_pep_to_..> | 2022-03-11 09:18 | 1.5K | |
| trinity_component_di..> | 2022-03-11 09:18 | 2.2K | |
| trinity_trans_matrix..> | 2022-03-11 09:18 | 1.7K | |
| validate_fastqs.py | 2022-03-11 09:18 | 2.6K | |