Re: [Pytables-users] [#152: creating a custom filter]

4 bits per nucleotide will waste too much space. On the other hand, NCBI way (http://blast.wustl.edu/blast/ncbi20ntfmt.html) is too complex. Now I am thinking of something like this: we encode in batches of 9 bytes. In each batch, the 1st byte holds flags for the next 8. If its i-th bit is 1, t

Re: [Pytables-users] [#152: creating a custom filter]

> Date: Tue, 12 Feb 2008 09:56:48 +0100 > From: [EMAIL PROTECTED] > Just one question: if your alphabet has 5 letters, how are you planning > to use only 2 bits to encode it? Or maybe the N is never actually > appearing in data? Almost 2 bits. This is how a 2 bit encoding is done in NCBI BLAST d

Re: [Pytables-users] [#152: creating a custom filter]

Ivan Vilata i Balaguer wrote: > - Forwarded message from PyTables <[EMAIL PROTECTED]> - > > #152: creating a custom filter > -+-- > Reporter: [EMAIL PROTECTED] | Owner: somebody > Type: enhancemen

[Pytables-users] [#152: creating a custom filter]

- Forwarded message from PyTables <[EMAIL PROTECTED]> - #152: creating a custom filter -+-- Reporter: [EMAIL PROTECTED] | Owner: somebody Type: enhancement | Status: new Prior