![[ICO]](/icons/blank.gif){kind=icon}
![[PARENTDIR]](/icons/back.gif){kind=icon}
![[ ]](/icons/unknown.gif){kind=icon}
![[TXT]](/icons/text.gif){kind=icon}
![[IMG]](/icons/image2.gif){kind=icon}
![[DIR]](/icons/folder.gif){kind=icon}
| Name | Last modified | Size | Description |
|---|---|---|---|---|
| Parent Directory | - | ||
| AUTHORS | 2024-10-01 18:36 | 1.3K | |
| CMakeLists.txt | 2024-10-01 18:37 | 6.2K | |
| HISAT2-genotype.png | 2024-10-01 18:36 | 724K | |
| HISAT2_VERSION | 2024-10-01 18:37 | 15 | |
| LICENSE | 2024-10-01 18:36 | 34K | |
| MANUAL | 2024-10-01 18:36 | 64K | |
| MANUAL.markdown | 2024-10-01 18:36 | 77K | |
| Makefile | 2024-10-01 18:37 | 16K | |
| NEWS | 2024-10-01 18:36 | 584 | |
| README.md | 2024-10-01 18:37 | 13K | |
| TUTORIAL | 2024-10-01 18:36 | 202 | |
| _config.yml | 2024-10-01 18:36 | 32 | |
| aligner_bt.cpp | 2024-10-01 18:36 | 53K | |
| aligner_bt.h | 2024-10-01 18:36 | 30K | |
| aligner_cache.cpp | 2024-10-01 18:36 | 4.1K | |
| aligner_cache.h | 2024-10-01 18:36 | 26K | |
| aligner_driver.cpp | 2024-10-01 18:36 | 2.3K | |
| aligner_driver.h | 2024-10-01 18:36 | 8.2K | |
| aligner_metrics.h | 2024-10-01 18:36 | 11K | |
| aligner_report.h | 2024-10-01 18:36 | 1.0K | |
| aligner_result.cpp | 2024-10-01 18:37 | 57K | |
| aligner_result.h | 2024-10-01 18:37 | 65K | |
| aligner_seed.cpp | 2024-10-01 18:36 | 16K | |
| aligner_seed.h | 2024-10-01 18:36 | 84K | |
| aligner_seed2.cpp | 2024-10-01 18:36 | 41K | |
| aligner_seed2.h | 2024-10-01 18:36 | 128K | |
| aligner_seed_policy.cpp | 2024-10-01 18:36 | 30K | |
| aligner_seed_policy.h | 2024-10-01 18:36 | 8.2K | |
| aligner_sw.cpp | 2024-10-01 18:36 | 101K | |
| aligner_sw.h | 2024-10-01 18:36 | 25K | |
| aligner_sw_common.h | 2024-10-01 18:36 | 8.5K | |
| aligner_sw_driver.cpp | 2024-10-01 18:36 | 736 | |
| aligner_sw_driver.h | 2024-10-01 18:36 | 106K | |
| aligner_sw_nuc.h | 2024-10-01 18:36 | 7.0K | |
| aligner_swsse.cpp | 2024-10-01 18:36 | 2.6K | |
| aligner_swsse.h | 2024-10-01 18:36 | 15K | |
| aligner_swsse_ee_i16.cpp | 2024-10-01 18:36 | 62K | |
| aligner_swsse_ee_u8.cpp | 2024-10-01 18:36 | 61K | |
| aligner_swsse_loc_i16.cpp | 2024-10-01 18:36 | 75K | |
| aligner_swsse_loc_u8.cpp | 2024-10-01 18:36 | 73K | |
| alignment_3n.cpp | 2024-10-01 18:37 | 7.5K | |
| alignment_3n.h | 2024-10-01 18:37 | 40K | |
| alignment_3n_table.h | 2024-10-01 18:37 | 9.5K | |
| aln_sink.cpp | 2024-10-01 18:36 | 25K | |
| aln_sink.h | 2024-10-01 18:37 | 152K | |
| alphabet.cpp | 2024-10-01 18:37 | 24K | |
| alphabet.h | 2024-10-01 18:36 | 5.5K | |
| alt.h | 2024-10-01 18:36 | 8.3K | |
| assert_helpers.h | 2024-10-01 18:36 | 9.3K | |
| banded.cpp | 2024-10-01 18:36 | 823 | |
| banded.h | 2024-10-01 18:36 | 1.2K | |
| binary_sa_search.h | 2024-10-01 18:36 | 3.5K | |
| bit_packed_array.cpp | 2024-10-01 18:36 | 7.1K | |
| bit_packed_array.h | 2024-10-01 18:36 | 2.8K | |
| bitpack.h | 2024-10-01 18:36 | 2.2K | |
| blockwise_sa.h | 2024-10-01 18:36 | 39K | |
| bp_aligner.h | 2024-10-01 18:36 | 62K | |
| btypes.h | 2024-10-01 18:36 | 1.3K | |
| ccnt_lut.cpp | 2024-10-01 18:36 | 1.9K | |
| diff_sample.cpp | 2024-10-01 18:36 | 4.5K | |
| diff_sample.h | 2024-10-01 18:36 | 31K | |
| docs/ | 2024-10-01 18:36 | - | |
| docs_jhu/ | 2024-10-01 18:36 | - | |
| dp_framer.cpp | 2024-10-01 18:36 | 36K | |
| dp_framer.h | 2024-10-01 18:36 | 9.1K | |
| ds.cpp | 2024-10-01 18:36 | 3.1K | |
| ds.h | 2024-10-01 18:36 | 89K | |
| edit.cpp | 2024-10-01 18:37 | 12K | |
| edit.h | 2024-10-01 18:36 | 9.9K | |
| endian_swap.h | 2024-10-01 18:36 | 4.1K | |
| evaluation/ | 2024-10-01 18:36 | - | |
| example/ | 2024-10-01 18:36 | - | |
| extract_exons.py | 2024-10-01 18:36 | 5.4K | |
| extract_splice_sites.py | 2024-10-01 18:36 | 4.9K | |
| fast_mutex.h | 2024-10-01 18:36 | 8.4K | |
| filebuf.h | 2024-10-01 18:36 | 16K | |
| formats.h | 2024-10-01 18:36 | 1.2K | |
| gbwt_graph.h | 2024-10-01 18:36 | 103K | |
| gfm.cpp | 2024-10-01 18:36 | 2.3K | |
| gfm.h | 2024-10-01 18:37 | 252K | |
| gp.h | 2024-10-01 18:36 | 2.0K | |
| group_walk.cpp | 2024-10-01 18:36 | 759 | |
| group_walk.h | 2024-10-01 18:36 | 56K | |
| hgfm.h | 2024-10-01 18:37 | 102K | |
| hi_aligner.h | 2024-10-01 18:37 | 293K | |
| hier_idx_common.h | 2024-10-01 18:36 | 1.6K | |
| hisat-3n | 2024-10-01 18:37 | 22K | |
| hisat-3n-build | 2024-10-01 18:37 | 4.6K | |
| hisat-3n-table | 2024-10-01 18:42 | 1.1M | |
| hisat2 | 2024-10-01 18:36 | 19K | |
| hisat2-align-l | 2024-10-01 18:40 | 14M | |
| hisat2-align-s | 2024-10-01 18:39 | 14M | |
| hisat2-build | 2024-10-01 18:36 | 2.7K | |
| hisat2-build-l | 2024-10-01 18:38 | 5.5M | |
| hisat2-build-new | 2024-10-01 18:36 | 3.0K | |
| hisat2-build-s | 2024-10-01 18:37 | 5.5M | |
| hisat2-inspect | 2024-10-01 18:36 | 2.6K | |
| hisat2-inspect-l | 2024-10-01 18:41 | 3.4M | |
| hisat2-inspect-s | 2024-10-01 18:41 | 3.4M | |
| hisat2-repeat | 2024-10-01 18:42 | 7.2M | |
| hisat2.cpp | 2024-10-01 18:37 | 199K | |
| hisat2.sln | 2024-10-01 18:36 | 5.3K | |
| hisat2.xcodeproj/ | 2024-10-01 18:36 | - | |
| hisat2_build.cpp | 2024-10-01 18:37 | 37K | |
| hisat2_build_main.cpp | 2024-10-01 18:36 | 2.0K | |
| hisat2_extract_exons.py | 2024-10-01 18:36 | 5.4K | |
| hisat2_extract_snps_haplotypes_UCSC.py | 2024-10-01 18:36 | 19K | |
| hisat2_extract_snps_haplotypes_VCF.py | 2024-10-01 18:36 | 34K | |
| hisat2_extract_splice_sites.py | 2024-10-01 18:36 | 4.9K | |
| hisat2_inspect.cpp | 2024-10-01 18:36 | 28K | |
| hisat2_main.cpp | 2024-10-01 18:36 | 2.0K | |
| hisat2_read_statistics.py | 2024-10-01 18:36 | 5.5K | |
| hisat2_repeat.cpp | 2024-10-01 18:37 | 36K | |
| hisat2_repeat_main.cpp | 2024-10-01 18:36 | 2.0K | |
| hisat2_simulate_reads.py | 2024-10-01 18:36 | 34K | |
| hisat2lib/ | 2024-10-01 18:37 | - | |
| hisat_3n_table.cpp | 2024-10-01 18:37 | 13K | |
| hisat_bp.cpp | 2024-10-01 18:36 | 151K | |
| ival_list.cpp | 2024-10-01 18:36 | 5.1K | |
| ival_list.h | 2024-10-01 18:36 | 6.5K | |
| li_hla/ | 2024-10-01 18:36 | - | |
| limit.cpp | 2024-10-01 18:36 | 1.8K | |
| limit.h | 2024-10-01 18:36 | 1.3K | |
| ls.cpp | 2024-10-01 18:36 | 3.6K | |
| ls.h | 2024-10-01 18:36 | 12K | |
| mask.cpp | 2024-10-01 18:36 | 1.0K | |
| mask.h | 2024-10-01 18:36 | 2.1K | |
| mem_ids.h | 2024-10-01 18:36 | 1.2K | |
| mm.h | 2024-10-01 18:36 | 1.5K | |
| msvcc/ | 2024-10-01 18:36 | - | |
| multikey_qsort.cpp | 2024-10-01 18:36 | 763 | |
| multikey_qsort.h | 2024-10-01 18:36 | 38K | |
| opts.h | 2024-10-01 18:37 | 7.4K | |
| outq.cpp | 2024-10-01 18:36 | 5.4K | |
| outq.h | 2024-10-01 18:36 | 3.2K | |
| pat.cpp | 2024-10-01 18:37 | 47K | |
| pat.h | 2024-10-01 18:37 | 44K | |
| pe.cpp | 2024-10-01 18:36 | 31K | |
| pe.h | 2024-10-01 18:36 | 9.5K | |
| position_3n.cpp | 2024-10-01 18:37 | 16K | |
| position_3n.h | 2024-10-01 18:37 | 11K | |
| position_3n_table.h | 2024-10-01 18:37 | 18K | |
| presets.cpp | 2024-10-01 18:36 | 2.6K | |
| presets.h | 2024-10-01 18:36 | 1.5K | |
| processor_support.h | 2024-10-01 18:36 | 2.3K | |
| qual.cpp | 2024-10-01 18:36 | 3.9K | |
| qual.h | 2024-10-01 18:36 | 6.5K | |
| radix_sort.h | 2024-10-01 18:36 | 11K | |
| random_source.cpp | 2024-10-01 18:36 | 3.2K | |
| random_source.h | 2024-10-01 18:36 | 5.2K | |
| random_util.cpp | 2024-10-01 18:36 | 907 | |
| random_util.h | 2024-10-01 18:36 | 5.8K | |
| read.h | 2024-10-01 18:37 | 16K | |
| read_qseq.cpp | 2024-10-01 18:36 | 8.2K | |
| ref_coord.cpp | 2024-10-01 18:36 | 1.0K | |
| ref_coord.h | 2024-10-01 18:36 | 10K | |
| ref_read.cpp | 2024-10-01 18:36 | 12K | |
| ref_read.h | 2024-10-01 18:37 | 8.5K | |
| reference.cpp | 2024-10-01 18:37 | 23K | |
| reference.h | 2024-10-01 18:37 | 5.9K | |
| repeat.h | 2024-10-01 18:36 | 24K | |
| repeat_builder.cpp | 2024-10-01 18:37 | 161K | |
| repeat_builder.h | 2024-10-01 18:37 | 27K | |
| repeat_kmer.h | 2024-10-01 18:36 | 20K | |
| rfm.h | 2024-10-01 18:36 | 41K | |
| sam.h | 2024-10-01 18:37 | 63K | |
| scoring.cpp | 2024-10-01 18:36 | 9.3K | |
| scoring.h | 2024-10-01 18:36 | 18K | |
| scripts/ | 2024-10-01 18:36 | - | |
| search_globals.h | 2024-10-01 18:36 | 1.4K | |
| sequence_io.h | 2024-10-01 18:36 | 3.6K | |
| shmem.cpp | 2024-10-01 18:36 | 1.3K | |
| shmem.h | 2024-10-01 18:36 | 4.9K | |
| simple_func.cpp | 2024-10-01 18:36 | 2.3K | |
| simple_func.h | 2024-10-01 18:36 | 3.4K | |
| splice_site.cpp | 2024-10-01 18:36 | 33K | |
| splice_site.h | 2024-10-01 18:36 | 18K | |
| splice_site_mem.h | 2024-10-01 18:36 | 1.0M | |
| splice_site_new.cpp | 2024-10-01 18:36 | 46K | |
| spliced_aligner.h | 2024-10-01 18:37 | 113K | |
| sse_util.cpp | 2024-10-01 18:36 | 1.0K | |
| sse_util.h | 2024-10-01 18:36 | 14K | |
| sstring.cpp | 2024-10-01 18:36 | 5.3K | |
| sstring.h | 2024-10-01 18:37 | 75K | |
| str_util.h | 2024-10-01 18:36 | 1.1K | |
| third_party/ | 2024-10-01 18:36 | - | |
| threading.h | 2024-10-01 18:36 | 1.3K | |
| timer.h | 2024-10-01 18:36 | 2.4K | |
| tinythread.cpp | 2024-10-01 18:36 | 8.9K | |
| tinythread.h | 2024-10-01 18:36 | 21K | |
| tokenize.h | 2024-10-01 18:36 | 1.7K | |
| tp.h | 2024-10-01 18:36 | 3.7K | |
| unique.cpp | 2024-10-01 18:36 | 2.3K | |
| unique.h | 2024-10-01 18:36 | 14K | |
| util.h | 2024-10-01 18:36 | 1.5K | |
| utility_3n.cpp | 2024-10-01 18:37 | 2.8K | |
| utility_3n.h | 2024-10-01 18:37 | 3.1K | |
| utility_3n_table.h | 2024-10-01 18:37 | 8.9K | |
| word_io.h | 2024-10-01 18:36 | 8.1K | |
| zbox.h | 2024-10-01 18:36 | 2.7K | |