- New de novo assembler
- Name change from CLC NGS Cell to QIAGEN CLC Assembly Cell
- De novo assembly of large genomes
- Inclusion of option to use paired reads for guidance only
- Fixed bug with large data sets on Windows
CLC NGS Cell 2.1
December 04, 2009
New features
- Support for gapped color space assembly
- Option to do global alignment of long reads
- Option to do gapped global alignment, also for short reads
- Option to do semi-global alignment
- More flexible license locations
- Various bug fixes
CLC NGS Cell 2.0.5
Release date: July 13, 2009
Updates
- Now dots (unknown colors) are allowed in csfasta files
- Various bug-fixes
CLC NGS Cell 2.0.3
Release date: April 28, 2009
Updates
CLC NGS Cell 2.0.2
Release date: April 21, 2009
Updates
CLC NGS Cell 2.0.1
Release date: February 26, 2009
Updates
- Support for license server
- Find_variations program has more options. Read more
- Various bug-fixes
CLC NGS Cell 2.0
Release date: January 14, 2009
New features
- De novo assembly
- Assembly in native color space format
- Long reads assembler significantly faster (up to 15x faster)
- Option for global alignment using ungapped short reads
- Support for csfasta format
- Support for Scarf format
- Assembly viewer: New options to search for a sequence motif
- Temporary files are placed in the directory specified by TMP (Windows) and TMPDIR (Mac and Linux) variables
Bug fixes
- Find_variations program optimized to avoid out-of-memory errors
- Sub_assembly og non_assembled_reads can be output in fastq format (by file name)
CLC NGS Cell 1.0
Release date: September 18, 2008
Main features
- Reference assembly of Sanger, 454, Solexa, Helicos, and SOLiD sequencing data
- Assembly of genomes of any size (only limited by RAM available)
- Assembly of standard read data and support for assembly of paired end reads / mate pair reads of any sequencing technology
- Integration with QIAGEN CLC Genomics Workbench for user friendly downstream analyses using a graphical user interface
- Quality reporting and statistics on raw data
- Option of joining data from different sources into the same analysis (including data generated by different kinds of sequencing technologies)
- Extraction of data from part(s) of an assembly.
- Find variations (simple SNP detection)
- Support for input file formats Fasta, Sff, and GenBank
- A number of output options, including tables with assembly info
- A “graphical” (ASCII art :-)) assembly viewer to get quick overview
- Runs on Windows, Mac OS X, and Linux