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Showing 8 open source projects for "report"
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1
mfsizes
Multi-FASTA sequence (DNA or protein) statistics calculator.
A simple command-line utility to calculate biological sequence (DNA or protein) sizes in a (multi) FASTA file. It gives averages, GC (or methionine) content, N50, N90, N95, number of N's, and total bases, and can also report by codon if requested. -
2
EFO
The Experimental Factor Ontology describing experimental variables
...All EFO development and source code has been moved to https://github.com/EBISPOT/efo *** The Experimental Factor Ontology (EFO) available from http://www.ebi.ac.uk/efo is an application focused ontology modeling the experimental factors in ArrayExpress and constructing mappings to multiple existing domain specific ontologies. To submit new terms, features or report bugs please submit a ticket at the following: http://www.ebi.ac.uk/panda/jira/secure/CreateIssue!default.jspa -
3
MSTgold
Estimate minimum spanning trees with statistical bootstrap support
Minimum spanning tree (MST) algorithms can generate multiple, equally-minimal, MSTs but MST programs typically report only one, arbitrarily chosen MST. Similarly, most MST programs do not provide statistical metrics to support the credibility of the MSTs that they estimate. MSTgold estimates the number of alternative MSTs, reports up to a user-determined number of those trees, reports a consensus tree, and implements a bootstrapping metric to assess the reliability of alternate MST solutions. ... -
4
P3BSseq
Parallel processing pipeline for analysis of bisulfite sequencing data
...We have developed P3BSseq, a parallel processing pipeline for fast, accurate and automatic analysis of BSseq reads that trims, aligns, annotates, records the intermediate results, performs bisulfite conversion quality assessment, generates BED methylome and report files following the NIH standards. P3BSseq outperforms the known BSseq mappers regarding running time, computer hardware requirements. We optimized the P3BSseq parameters for both directional and non-directional libraries, and for both single-end and paired-end reads of Whole Genome and Reduced Representation BSseq. P3BSseq is a user-friendly streamlined solution for BSseq upstream analysis, requiring only basic computer and NGS knowledge. -
Atera all-in-one platform IT management software with AI agentsAtera’s AI agents don’t just assist, they act. From detection to resolution, they handle incidents and requests instantly, taking your IT management from automated to autonomous.
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5
MuffinEC
Multi-technology, INDEL aware error correction for NGS data
...MuffinEC can use multicore systems, thanks to its OpenMP implementation. We are developing the 2nd version of MuffinEC. The beta version is already available online. The changes are listed in the VERSION_HISTORY file. Please report any problem you may encounter at the email address specified in the README file. We really appreciate your help. -
6
detectIR
Detection of Perfect and Imperfect Inverted Repeats
...id=10.1371/journal.pone.0113349 [3] detectIR user manual Please visit the Wiki page of this website. [4] detectIR Q&A For Q&A, please visit the Blog page of this website. [5] detectIR bug report You can report a bug as a Ticket request, or start a topic session in the Discussion webpage of this website. [6] Update history To see the update history, go to https://sourceforge.net/p/detectir/wiki/Update%20History/ -
7
Virus QSP Modeling
C++ and Python code for simulating RNA virus replication
...Simulates replication error and copy-choice recombination. Various parameters guiding the model are user-specified. Python code post-processes simulation output to produce report files. -
8
bint
Converts intensity text files to binary for fast subsetting
...Extracting the data for individual SNP/CNV markers or individual samples was slow grep/awk'ing the text files exported from the genotyping run (e.g. Illumina final report files). bint converts the text representation of the intensity float data to into a IEEE754 indexed binary file for rapid extraction of subsets of the data. In theory bint could be used for any large tables of float data.
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