User: Protostome

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Protostome50
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Posts by Protostome

<prev • 7 results • page 1 of 1 • next >
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Comment: C: Calculating p-Value for an observed/expected Ratio
... Yes, that makes sense ...
written 21 months ago by Protostome50
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Answer: A: Calculating p-Value for an observed/expected Ratio
... Try the fisher exact test. The contingency table could be something By random -- In your experiment # Reads mapping to Feature X _ _ # Reads not mapping to X _ _ ...
written 21 months ago by Protostome50
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Job: Machine learning scientist for IgC Bio
... **About IgC Bio** IgC Bio is a young startup that span off one of the top labs in the Weizmann institute in Rehovot, Israel. We have developed a groundbreaking technology for computational protein engineering that is applied to solve the world's greatest illnesses. We are well funded and have a wet ...
next-gen job rna-seq written 21 months ago by Protostome50 • updated 21 months ago by nasbelyakova50
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Comment: C: Creation of Fasta Database of Bacterial Proteins
... You can download many (all?) bacterial genomes here: ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/bacteria Getting protein sequences from bacterial genomes is most probably trivial for you ... ...
written 23 months ago by Protostome50
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Comment: C: Getting sequence id from k-mers using jellyfish
... Thanks Rob. I think the best approach is to iterate these k-mers and keep a list of reads per k-mer off - memory (SQLite is probably the easiest method) ...
written 2.9 years ago by Protostome50
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Getting sequence id from k-mers using jellyfish
... I'm currently extracting a list of k-mers from a FastQ file, using jellyfish. In addition to the k-mers, I would also like a list of all the sequence ids (which are actually the id of the MiSeq reads) for each k-mer. Is this something jellyfish is capable of doing? Unfortunately, couldn't find any ...
next-gen alignment jellyfish written 2.9 years ago by Protostome50 • updated 2.9 years ago by Rob3.1k
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Answer: A: How to get the maximum number of hits in BLAST 2.2.31+?
... Use either of the following flags (taken from blastp -help)  -max_target_seqs <Integer, >=1>    Maximum number of aligned sequences to keep     Not applicable for outfmt <= 4    Default = `500'   OR:  -num_descriptions <Integer, >=0>    Number of database sequences to show ...
written 3.2 years ago by Protostome50

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Popular Question 21 months ago, created a question with more than 1,000 views. For Getting sequence id from k-mers using jellyfish

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