使用gt ltrharvest计算基因组中的LTR /data/mg1/caix/miniconda3/envs/EDTA/bin/gt ltrharvest-indexZ1v2.fm.fasta-minlenltr100-maxlenltr7000-mintsd4-maxtsd6-motifTGCA-motifmis1-similar85-vic10-seed20-seqids yes>Z1v2.fm.fasta.harvest.scn 使用LTR_FINDER计算基因组中的LTR /data/mg1/caix/src...
内容提示: BioMed CentralPage 1 of 14(page number not for citation purposes)BMC BioinformaticsOpen AccessSoftwareLTRharvest, an efficient and flexible software for de novo detection of LTR retrotransposonsDavid Ellinghaus, Stefan Kurtz and Ute Willhoeft*Address: ZBH – Center for Bioinformatics, ...
SPPearce reviewed Jul 16, 2024 View reviewed changes modules/nf-core/ltrharvest/tests/main.nf.test Show resolved GallVp added 5 commits July 17, 2024 10:31 ltrharvest: Added test to verify graceful handling of no ltr input 53426ba Updated test data paths 5088db5 Fixed test data pat...
[4]. LTRharvest computes boundary positions of potential LTR retro- transposons on a persistent index structure of the genomic target sequence, the enhanced suffix array [3]. Usually the genomic target sequence is a complete chromosomal DNA sequence in FASTA for- mat. Nevertheless, every DNA ...
LTR retrotransposons, an important subclass of transposable elements, are well suited for computational identification, as they contain long terminal repeats (LTRs)./p pResults/p pWe have developed a software tool itLTRharvest /itfor the itde novo /itdetection of full length LTR retrotransposons ...