Results for "LTR"
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BBMap.sh Mapping Nanopore reads BBMap.sh has a length cap of 6kbp. Reads longer than this will be broken into 6kbp pieces and mapped independently. Code: $...2284 days ago
- DeepMind’s artificial intelligence system AlphaFold2, predicts the 3D structure of a protein based on its amino acid sequence. It looks to be a 50-year-old answ...
552 days ago
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“One code to find them all”: a perl tool to conveniently parse RepeatMasker output files
...sposable elements, retrieve their sequences and get some quantitative information. Assemble RepeatMasker hits into complete TE copies, including LTR-retrotransposon Retrieve cor...2176 days ago
LTR_Finder: an efficient program for finding full-length LTR retrotranspsons in genome sequences.
LTR_Finder is an efficient program for finding full-length LTR retrotranspsons in genome sequences. The...an algorithm is used to adjust the ends of LTR pair candidates to get alignm...mation of TG..CA box and TSRs and reliable LTRs are selected. Next, LTR_FIND...1953 days ago
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Master Thesis: Trans-membrane topology prediction through Markov based decoders
Abstract: Background/Motivation: The dearth of structural information on alpha helical membrane protein (MPs) has hindered thus far the development of reliable kno...3958 days ago
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- To do sam to bam conversion, follow the following commands :- Code: $ samtools view -b -S file.sam > file.bam Then you will need to use Code:...
2305 days ago
Computational resources for TE discovery and TE detection
...bsp; Censor http://www.girinst.org/censor/download.php find_ltr http://darwin.informatics.indiana.edu/cgi-bin/evolution/ltr.pl FINDMITE http://jak...2288 days ago
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LTR_Finder: an efficient program for finding full-length LTR retrotranspsons in genome sequences.
LTR_Finder is an efficient program for finding full-length LTR retrotranspsons in genome sequences. The Program first constructs all exact match pairs by a suffix-array based algorithm and extends them to long highly similar pairs. Then Smith-Waterman algorithm is used to adjust the ends of LTR ...Tags: LTR_Finder, efficient, program, find, full-length, LTR, retrotranspsons, genome, sequences
1953 days ago
- LTR_retriever is a command line program (in Perl) for accurate identification of LTR retrotransposons (LTR-RTs) from outputs of LTRharvest, LTR_FINDER, and/or MGEScan-LTR and generating non-redundant LTR-RT library for genome annotations. By default, the program will generate whole-genome LTR-RT...
Tags: LTR_retriever, accurately, identifies, annotates, LTR, retrotransposons, LAI, evaluates, continuity, genome, assemblies.
1953 days ago
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Comment on "Bioinformatics Algorithm Demonstrations and Tutorials"
Tree Edit Distance Problems: Algorithms and Applications to Bioinformatics @ http://repository.kulib.kyoto-u.ac.jp/dspace/bitstream/2433/139423/1/transinf.E93.D.208.pdf3905 days ago
Comment on "Perl and BioPerl Tutorials"
Ulrich Bodenhofer, Mihaela Ionescu. Perl: A Short Introduction for Bioinformaticians http://www.bioinf.jku.at/teaching/ws2013/sapue/Perl-Tutorial.pdf3910 days ago
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