tag:blogger.com,1999:blog-38049554.post3606681522367918798..comments2023-10-21T07:53:38.322-05:00Comments on (It's a ...) Micro World (... after all): BioinformaticsUnknownnoreply@blogger.comBlogger1125tag:blogger.com,1999:blog-38049554.post-1518289608723515322008-11-13T22:08:00.000-05:002008-11-13T22:08:00.000-05:00Hi TomJoe,These days, I'm spending more time in th...Hi TomJoe,<BR/><BR/>These days, I'm spending more time in the classrooom, but when I am actually doing bioinformatics instead of teaching it, I am using;<BR/><BR/>1. Phred or KB for basecalling and quality trimming, and Cross_Match for vector masking - of course this is through our software system, so that I can sort high vs. low quality sequence.<BR/><BR/>2. FinchTV to view polymorphisms and BLAST high quality regions of sequence. <BR/><BR/>3. JalView with Clustal to make, view, and color, multiple alignments.<BR/><BR/>4. Cn3D to view 3D structures of 16S RNA.<BR/><BR/>5. Phrap to assemble sequences and identify SNPs and chimeras.<BR/><BR/>6. Phylip programs to make different kinds of trees.<BR/><BR/>7. Maq to align data from Next Gen sequencing experiments.<BR/><BR/>and other things, but that's enough for the moment.Sandra Porterhttps://www.blogger.com/profile/09209950581908760880noreply@blogger.com