Results for "Statistics and Probability"
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Alfred: BAM Statistics and Feature Counting
The easiest way to get Alfred is to download a statically linked binary from the Alfred github release page. Alternatively, you can build Alfred from source. Alfred...2305 days ago
“One code to find them all”: a perl tool to conveniently parse RepeatMasker output files
One code to find them all is a set of perl scripts to extract useful informat...e elements, retrieve their sequences and get some quantitative informa...Retrieve corresponding TE sequences, and flanking sequences, from the local fasta files Compute summary statistics...2173 days ago
- GMcloser uses likelihood-based classifiers calculated from the alignment statistics between scaffolds, contigs and paired-end reads to correctly assign contigs or long read...s to gap regions of scaffolds, thereby achieving accurate and efficie...
2166 days ago
LACHESIS: Genome Assembly with Hi-C-based Contact Probability Maps (LACHESIS)
LACHESIS is method that exploits contact probability map data (e.g. from Hi-C) for chromosome-scale de novo...er information about LACHESIS, including source code, documentation and a user's guide are available at: ...2194 days ago
Hercules: a profile HMM-based hybrid error correction algorithm for long reads
Choosing whether to use second or third...o trade-offs between accuracy and read length. Several studies require long and accurate reads including de n...posterior transition/emission probability distribution for each...mong all competing algorithms and highest accuracy when most of the bas...2095 days ago
CBS Comparative Microbial Genomics group - BioTools download page
he CMG-biotools system presents a stand-alone interface for comparative microbial genomi...ed. We here demonstrate the package by comparing and analyzing the diversity withi...e analyses include 16S rRNA phylogeny, basic DNA and codon statistics,...2093 days ago
BASE: a practical de novo assembler for large genomes using long NGS reads
new de novo assembler called BASE. It...nerate adaptive seeds that have high probability to appear uniquely in...is for BASE to build extension trees and then to use reverse validatio...the branches based on read coverage and paired-end information, resulting in...2036 days ago
KOBAS: a web server for gene/protein functional annotation and functional gene set enrichment
KOBAS 3.0 is a web server for gene/prote...tation (Annotate module) and functional gene set enrichmen..., including IDs or sequences, and generates annotations for eac...ses about pathways, diseases, and Gene Ontology. For Enrichment...responding name, p-value or a probability of enrichment and enrichment...2035 days ago
AMStat: display statistics of large sequence files from next generation sequencing projects
SAMStat is an efficient C program to quickly display statistics of large sequence files from next gene...applied to SAM/BAM files all statistics are reported for unmapped, poorly and accurately mapped reads separ...of problems, such as remaining linker and adaptor...2014 days ago
RepeatMasker compatible blast tool
RMBlast is a RepeatMasker compatible version of the standard NCBI blastn program. The primar...fference between this distribution and the NCBI distribution is the...mblastn" for use with RepeatMasker and RepeatModeler. RMBlast suppo...t for custom matrices ( without KA-Statistics...1986 days ago
