:: DESCRIPTION
YALFF is a tool for quality scores compression by smoothing leading to improved compressibility of FASTQ files.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
BMC Bioinformatics, 20 (Suppl 9), 302 2019 Nov 22
Better Quality Score Compression Through Sequence-Based Quality Smoothing
Yoshihiro Shibuya, Matteo Comin
:: DESCRIPTION
BARCODE achieves highly efficient compression by using a reference genome, but completely circumvents the need for alignment, affording a great reduction in the time needed to compress.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
BMC Bioinformatics. 2014;15 Suppl 9:S7. doi: 10.1186/1471-2105-15-S9-S7. Epub 2014 Sep 10.
Fast lossless compression via cascading Bloom filters.
Rozov R, Shamir R, Halperin E.
:: DESCRIPTION
G-to-A hypermutation filter generation using expectation maximization. Given a table of aggregated values and a set of preliminary filter constants, this program will construct a set of frequency distributions characterizing the hypermutated and non-hypermutated sequence subsets.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
A classification model for G-to-A hypermutation in hepatitis B virus ultra-deep pyrosequencing reads.
Reuman EC, Margeridon-Thermet S, Caudill HB, Liu T, Borroto-Esoda K, Svarovskaia ES, Holmes SP, Shafer RW.
Bioinformatics. 2010 Dec 1;26(23):2929-32. doi: 10.1093/bioinformatics/btq570.
:: DESCRIPTION
BamTable filters sorted bam files according to a configurable set of criteria and prints a table with the number of A, C, G and T bases that passed filtering for each position in the selected range.
::DEVELOPER
Department of Genetics/Bioinformatics – Max Planck Institut
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
:: DESCRIPTION
Quality Filter is a perl script to filter sequences(multifasta format, only reads with the same length) based on phred quality
::DEVELOPER
Prof. Rommel Ramos
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
:: DESCRIPTION
FRICK loads a list of IDs, and filter or retrieve the associated data from a .pcl or .cdt file. FRICK is written in perl.
::DEVELOPER
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
The software is copyrighted under the terms of the GNU General Public License. You can view this license at http://www.gnu.org/licenses/gpl.txt.
