User: Biostar User

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Biostar User1.0k
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Joined:
8 years, 11 months ago
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r*****@yahoo.com

not really a user just a way to test content and seed the site when it started

Posts by Biostar User

<prev • 13 results • page 1 of 2 • next >
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Comment: C: Fold Change Detection In Affymetrix Microarray Data Without Replicates
... you will probably be hard pressed to find a reference on how to do statistical analysis with no replicates. what is described is just basic statistics, create a histogram, fit it with a normal, or just look at the percent of values within a certain distance, that will give you the probability of o ...
written 6.0 years ago by Biostar User1.0k • updated 6.0 years ago by Istvan Albert ♦♦ 77k
100
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14
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52k
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42 follow
14
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Tools To Find Gene Ontology Term Enrichment
... I need to make a recommendation to people working in a wet-lab looking for an easy to use tool that does GO term enrichment determination. For those unfamiliar with the concept it means that given a list of gene names they want to find out which gene ontology terms are present in numbers that are ab ...
gene enrichment tool written 8.5 years ago by Biostar User1.0k • updated 22 months ago by jin80
76
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12
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16k
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20 follow
12
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What Methods Do You Use For Short Read Mapping?
... When it comes to short read mapping there seemingly is no shortage of methods or software to choose from. Yet in practice we found that some published methods did now work at all, others exhibited suboptimal behaviors. What short read mappers do you use? How many reads do you need align and what ...
short aligner sequence written 8.6 years ago by Biostar User1.0k • updated 8.6 years ago by Erik20
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16 follow
10
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Experiences With Cloud Computing In Bioinformatics
... In the past years cloud computing services such as the Amazon's Elastic Compute cloud seem to have emerged a recommended alternative for providing high performance computing. What are your experiences when it comes to bioinformatics in the cloud? ...
cloud general written 8.6 years ago by Biostar User1.0k • updated 16 months ago by Sundeep Kumar10
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Answer: A: List All The Tools Or Write A Script To Validate That A Sequence Only Contains L
... Here is an efficient function written in Python: dna = set("ATGC") def validate(seq, alphabet=dna): "Checks that a sequence only contains values from an alphabet" leftover = set(seq.upper()) - alphabet return not leftover # typical usage below # thi ...
written 8.6 years ago by Biostar User1.0k • updated 13 days ago by Ram17k
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8 follow
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List All The Tools Or Write A Script To Validate That A Sequence Only Contains Letters From A Given Alphabet
... How do I verify that a sequence only contains letters from a given alphabet: DNA, RNA, protein? ...
sequence dna written 8.6 years ago by Biostar User1.0k • updated 7.7 years ago by Dave Lunt2.0k
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14 follow
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Fast Interval Intersection Methodologies
... Most genomic annotations are specified as intervals along the genome. Interval trees have been known to provide an efficient datastructure that allows for very fast overlap querying. Nested Containment Lists have been proposed as an even faster alternative Provide code examples in your progra ...
genomics written 8.6 years ago by Biostar User1.0k • updated 10 months ago by daniel30
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Comment: C: Computing The Reverse And Complement Of A Sequence With Biopython
... good point but it seems like that would generate way too many small questions ...
written 8.6 years ago by Biostar User1.0k
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(Closed) Computing The Reverse And Complement Of A Sequence With Pygr
... Computing the reverse complement with the Pygr bioinformatics framework: # # Reverse complement example with pygr # from pygr.sequence import Sequence # needs a separate function to reverse strings def rev(it): "Reverses an interable and returns it as a string" return ''.join(reversed(it) ...
python sequence written 8.6 years ago by Biostar User1.0k • updated 7.7 years ago by Lars Juhl Jensen11k
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8 follow
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Computing The Reverse And Complement Of A Sequence With Biopython
... An example that computes the reverse complement of a sequence with BioPython # # Reverse complement example with BioPython # from Bio.Seq import Seq # a separate function to reverse strings (or other iterables) def rev(it): "Reverses an interable and returns it as a string" return ''.join ...
python sequence biopython written 8.6 years ago by Biostar User1.0k • updated 3.5 years ago by Biostar ♦♦ 20

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