Fermi-lite statistics

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Citations per year

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Popular tool citations

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Tool usage distribution map

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Associated diseases

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Fermi-lite specifications

Information


Unique identifier OMICS_19944
Name Fermi-lite
Software type Framework/Library
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages C
License MIT License
Computer skills Advanced
Stability Stable
Requirements
https://github.com/lh3/fermi-lite/archive/master.zip
Maintained Yes

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Documentation


Fermi-lite in publications

 (2)
PMCID: 5937819
PMID: 29690866
DOI: 10.1186/s12864-018-4683-0

[…] breakpoints were extracted using samtools v1.3.1 [] and re-synchronized using a custom script. de novo assembly of breakpoint-spanning contigs was performed using the overlap-based (olc) assembler fermi-lite [], considering the number of reads in a 2 kbp window can be relatively small. contigs were aligned to the reference using yaha v0.1.83 [], which is optimized for finding spilt-alignments. […]

PMCID: 5766544
PMID: 29330416
DOI: 10.1038/s41598-017-19128-6

[…] match (smem) of 40 bp. this permits reads to map to almost all exons. the mapped reads are then extracted into separate files per starting transcript, and assembled using soapdenovo2 (k = 63 bp) and fermi-lite (https://github.com/lh3/fermi-lite/) with default parameters. the output from both processes are assembled using cap3 (-k 0 -p 75 -o 30 -h 80 -f 200 -g 4) with parameters that permit […]


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