[zee]

The latest V2.05 is available to download for not-for-profit and research use. There are no restrictions if you would like to use it in your research work.

Added features e.g. BS-alignemnt, multithreading, etc are available in the 'Pro'/commercial version.

Hi Colin,

I am wondering whether novocraft 2.04 version is free to download for reaserch purpose?

Thanks

[sparks]

Novoalign is still available free for use in non-profit organizations but some of the new features are disabled. The free version will do DNA, miRNA, RNA alignment of single end and paired end reads.
The commercial versions adds multi-threading, bi-seq alignment, base quality calibration and buying a license also helps fund further development.

Colin

[BAJ]

sequence identifiers like >chrY_random

retracting comment. I have to check some more on my side first.
Sorry,
Bernd

[sparks]

It's OK. Some copies of Human Genome have some additional sequence files like:

chr7_random.fa
>chr7_random
gatcatgctattgcactccagcctgggcgacagagtgaaactccatctca
gaaaaaataaataaaTGAGAGGATCAGCCAACGCATCAGCAAATGTCAGC
CGGACGGTTTAATTTCCACTCATCCCACGACACGAGGCAACCCTCAAACA
CACAGGTCCTGGCCATGAAGCCTTCAGGGAATCACAGGACTGGGTGCTGA
CCCAGAAAACTCTACAAAGCTTTGTGACCAAAGAGGTTCGAGTCCCAAGT
CCCCTTCAGGAAGAGCTGCAGTCTGCTCATGtgtctaagtttgcctctgt
tgcttataacaacataccggaaactgggtaaattataaaggaaaggcatt
tatttctcacagttatgaggctggataaatccagggtcgagtggccacaa
tggctttcttgctggaggggacttttcagggttcccaggtggcacaggcc

Some of these must have been included in your index build.
Colin