目录
- .gitignoreadded gitignore12年前
- Makefilekprof working5年前
- README.mdadded a short README12年前
- bubble.cr162: cleanup graph simplification11年前
- correct.cr158: reverted to r15611年前
- dfs.cr156: removed fastsim11年前
- diff.cr81: use kthread to replace pthread12年前
- fermi2.hkprof working5年前
- fermi2.jsremoved plp2var and var2vcf in favor of htsbox11年前
- fermi2.plAdd missing escape for INPUT8年前
- ketopt.hmissing header file5年前
- khash.hmerge fmc to fermi212年前
- kseq.hr100: fixed a nasty bug caused by kstring_t12年前
- ksort.hr78: "assemble" working on a tiny example12年前
- kstring.hseparate unpack and sub12年前
- ksw.ck76: ported "unitig" and "clean" from fermi112年前
- ksw.hk76: ported "unitig" and "clean" from fermi112年前
- kthread.cr81: use kthread to replace pthread12年前
- kvec.hr104: match to find SMEMs12年前
- mag.cr193: fixed a graph cleaning bug9年前
- mag.hr178: added trim depth; better in practice11年前
- main.cadded kprof5年前
- match.cr202: added min length5年前
- priv.hforgot this file12年前
- profk.ckprof working5年前
- rld0.cr135: rld0.c failed to work with >2^31 integers11年前
- rld0.hr80: fixed a bug in rld012年前
- sa.ccode backup11年前
- seq.ck76: ported "unitig" and "clean" from fermi112年前
- sgdp.mdUpdated sgdp doc to use htsbox, not fermi2.js11年前
- sub.cr81: use kthread to replace pthread12年前
- sys.cfinished "sub", but not tested yet12年前
- unitig.cr170: the pre-rev not working in all cases11年前
- unpack.cr98: unpack a subset of sequences12年前
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Note: fermi2 is in fact not the successor of fermi. It drops the assembly component in fermi and focuses on the exploration of FMD-index as a graph. It relies on fermi or ropebwt2 for index construction.
Fermi2 is fairly incomplete, but some components are usable and to some extend better than fermi equivalent.