ConDeTri 2.2 – Content Dependent Read Trimmer for Illumina data

ConDeTri 2.2

:: DESCRIPTION

ConDeTri is a content dependent read trimming software for Illumina/Solexa sequencing data

::DEVELOPER

Linnéa Smeds , Axel Künstner at EBC – Evolutionary Biology Centre

:: SCREENSHOTS

N/a

:: REQUIREMENTS

  • Linux / MacOsX  /Windows
  • Perl

:: DOWNLOAD

 ConDeTri

:: MORE INFORMATION

Citation

PLoS One. 2011;6(10):e26314. doi: 10.1371/journal.pone.0026314. Epub 2011 Oct 19.
ConDeTri–a content dependent read trimmer for Illumina data.
Smeds L, Künstner A.

SliderII 1.1 – High Quality SNP Calling Using Illumina Data at Shallow Coverage

SliderII 1.1

:: DESCRIPTION

SliderII Results of SNPs concordance comparison to Maq.We used 68 lanes human whole genome shotgun sequencing, WGSS, PET data (real data), a total of 906 million reads sizes from 36 to 42 bases, using each of SliderII and MAQ, we aligned these reads to the human genome hg18 resulting a coverage of about 7.5 X. For each aligner, SNPs are sorted in descending order, using SNPs score for SliderII, and the Phred-like consensus quality score for MAQ.  Concordance with Ensembl Variation 50 SNPs is used to compare SNPs calling accuracy.

::DEVELOPER

Yaron Butterfield

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux/Windows/MacOsX

:: DOWNLOAD

 SliderII

:: MORE INFORMATION

Citation

Malhis et. al. 2008
High Quality Alignment and SNP Calling for Illumina High Throughput Sequence Data
Bioinformatics (2009) 25 (1): 6-13