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Bioinformatics : RNA : Neurodegeneration — Friedman Lab

Bioinformatics : RNA : Neurodegeneration. Accessing HDF5 files with PDL: IO: HDF5. August 9th, 2011 — Uncategorized. Storing Variable-length sequences in a Relational Database. February 16th, 2011 — Uncategorized. Continue reading →. Fixing MISO error codes. January 25th, 2011 — Uncategorized. I am writing some wrapper scripts to run MISO. However, when you supply bad arguments MISO exits but with error code 0. So it is hard to check that the execution was successful. Continue reading →. ValueError: nump...

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Bioinformatics : RNA : Neurodegeneration — Friedman Lab | blog.friedman-lab.com Reviews
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Bioinformatics : RNA : Neurodegeneration. Accessing HDF5 files with PDL: IO: HDF5. August 9th, 2011 — Uncategorized. Storing Variable-length sequences in a Relational Database. February 16th, 2011 — Uncategorized. Continue reading →. Fixing MISO error codes. January 25th, 2011 — Uncategorized. I am writing some wrapper scripts to run MISO. However, when you supply bad arguments MISO exits but with error code 0. So it is hard to check that the execution was successful. Continue reading →. ValueError: nump...
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Bioinformatics : RNA : Neurodegeneration — Friedman Lab | blog.friedman-lab.com Reviews

https://blog.friedman-lab.com

Bioinformatics : RNA : Neurodegeneration. Accessing HDF5 files with PDL: IO: HDF5. August 9th, 2011 — Uncategorized. Storing Variable-length sequences in a Relational Database. February 16th, 2011 — Uncategorized. Continue reading →. Fixing MISO error codes. January 25th, 2011 — Uncategorized. I am writing some wrapper scripts to run MISO. However, when you supply bad arguments MISO exits but with error code 0. So it is hard to check that the execution was successful. Continue reading →. ValueError: nump...

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blog.friedman-lab.com blog.friedman-lab.com
1

First post — Friedman Lab

http://blog.friedman-lab.com/2010/12/23/first-post

Bioinformatics : RNA : Neurodegeneration. Running MISO on a cluster. December 23rd, 2010 Uncategorized. Welcome to the Friedman Lab blog. I will explore here ideas about bioinformatics. 0 comments ↓. There are no comments yet.Kick things off by filling out the form below. You must log in. To post a comment. Accessing HDF5 files with PDL: IO: HDF5. Storing Variable-length sequences in a Relational Database. Fixing MISO error codes. Installing Perl modules without Root access. Running MISO on a cluster.

2

Storing Variable-length sequences in a Relational Database — Friedman Lab

http://blog.friedman-lab.com/2011/02/16/storing-variable-length-sequences-in-a-relational-database

Bioinformatics : RNA : Neurodegeneration. Larr; Fixing MISO error codes. Accessing HDF5 files with PDL: IO: HDF5. Storing Variable-length sequences in a Relational Database. February 16th, 2011 Uncategorized. One solution to this problem is to define a single column and store the sequences as comma-separated strings. This is the solution that UCSC uses with the. Tables. This solution works and I call it the “flat” method. The first few lines look like this:. The 4th line represents an empty sequence.

3

Running MISO on a cluster — Friedman Lab

http://blog.friedman-lab.com/2011/01/11/running-miso-on-a-cluster

Bioinformatics : RNA : Neurodegeneration. Larr; First post. Installing Perl modules without Root access. Running MISO on a cluster. January 11th, 2011 Uncategorized. I’m trying to get Yarden Katz’s program MISO. Running on the Harvard FAS computing cluster. It is not so easy to satisfy all the dependencies. ValueError: can't handle version -1 of numpy.dtype pickle. ImportError: cannot import name defaultdict. ValueError: numpy.dtype does not appear to be the correct type object. In theory it should be go...

4

Accessing HDF5 files with PDL::IO::HDF5 — Friedman Lab

http://blog.friedman-lab.com/2011/08/09/accessing-hdf5-files-with-pdliohdf5

Bioinformatics : RNA : Neurodegeneration. Larr; Storing Variable-length sequences in a Relational Database. Accessing HDF5 files with PDL: IO: HDF5. August 9th, 2011 Uncategorized. O(1) access time for elements/bounded slices. By O(1) I mean that it does not scale with the size of the whole table. O(1) access time for accessing entire rows (or columns). Here again I mean that it does not scale with the number of columns (or rows). Reasonable access time for extracting the entire file. The left side shows...

5

Uncategorized — Friedman Lab

http://blog.friedman-lab.com/category/uncategorized

Bioinformatics : RNA : Neurodegeneration. Entries Tagged 'Uncategorized' ↓. Accessing HDF5 files with PDL: IO: HDF5. August 9th, 2011 — Uncategorized. Storing Variable-length sequences in a Relational Database. February 16th, 2011 — Uncategorized. Continue reading →. Fixing MISO error codes. January 25th, 2011 — Uncategorized. Installing Perl modules without Root access. January 21st, 2011 — Uncategorized. Sudo cpan -i Module: Name. Running MISO on a cluster. January 11th, 2011 — Uncategorized. ImportErr...

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Bioinformatics : RNA : Neurodegeneration — Friedman Lab

Bioinformatics : RNA : Neurodegeneration. Accessing HDF5 files with PDL: IO: HDF5. August 9th, 2011 — Uncategorized. Storing Variable-length sequences in a Relational Database. February 16th, 2011 — Uncategorized. Continue reading →. Fixing MISO error codes. January 25th, 2011 — Uncategorized. I am writing some wrapper scripts to run MISO. However, when you supply bad arguments MISO exits but with error code 0. So it is hard to check that the execution was successful. Continue reading →. ValueError: nump...

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