User: pcantalupo

gravatar for pcantalupo
pcantalupo120
Reputation:
120
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Trusted
Location:
United States
Last seen:
2 years, 10 months ago
Joined:
5 years, 10 months ago
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Posts by pcantalupo

<prev • 14 results • page 1 of 2 • next >
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sequence of rapid library MIDs
... Hello, I'm trying to determine the sequences of the 454 Rapid Library MIDs named MID RL001 to MID RL012. I was able to find the seqs for the regular MID sequences in this [document](http://uagc.arl.arizona.edu/sites/default/files/u4/454GuidelinesforAmpliconExperimentalDesign.pdf) but it does not co ...
454 multiplex picotiterplate roche written 2.8 years ago by pcantalupo120
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is there an IMR90 cell line complete genome sequence available
... Hi, I'm trying to determine if there is a complete genome of the human cell line IMR90. I found GEO accession [GSM1296454](https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1296454) which is a whole genome sequence of IMR90. However, that would just be the individual SOLID reads. Does anybody kn ...
genome written 2.8 years ago by pcantalupo120
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Comment: C: Transcript Models In Circos
... I'm trying to create a transcript track as well. Has Circos been updated to include a gene track? Thank you ...
written 3.3 years ago by pcantalupo120
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error running abyss-pe with np option on mac snow leopard
... Hello, I downloaded source v1.9.0 and successfully compiled it on Mac snow leopard 10.6. I tried running abyss-pe but got the following error abyss-pe works fine without the np option. What do I need to do to make the parallel version of abyss-pe work on my machine? Thank you,   Paul ...
assembly abyss written 4.5 years ago by pcantalupo120
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Comment: C: convert from solid fastq to sanger fastq
... duly noted. ...
written 5.5 years ago by pcantalupo120
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Answer: A: convert from solid fastq to sanger fastq
... Hello Stars, Thank you to those that commented above. Since I couldn't find a script to suit my needs, I wrote my own colorspace fastq to sanger fastq Perl script in case anybody is interested. If you detect a bug in the script, please let me know. P ...
written 5.5 years ago by pcantalupo120
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Comment: C: convert from solid fastq to sanger fastq
... I am aligning with Bowtie2 but then I want to capture the unmapped sequences (I could care less about the human reads) for analysis in my viral meta-genomics pipeline which needs real Gs As Ts and Cs. Thank you again...Paul ...
written 5.5 years ago by pcantalupo120
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convert from solid fastq to sanger fastq
... Hello, I downloaded Solid fastq file from here: ftp://ftp.ddbj.nig.ac.jp/ddbj_database/dra/fastq/SRA062/SRA062077/SRX207729/. I need to convert this format into sanger fastq because the software pipeline that I wrote only handles sanger fastq. Here is what the first two sequences in the file looks ...
fastq solid written 5.5 years ago by pcantalupo120
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Answer: A: Shannon entropy of a DNA motif?
... Hello, I just found this interesting website that calculates Shanon entropy http://www.shannonentropy.netmark.pl/ and gives you the formula. Hope it helps, Paul ...
written 5.8 years ago by pcantalupo120
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Answer: A: Is there an online resource with freely available transcriptomes data from?
... Hello, Here are two resources to start with: - [EBI Array Express](http://www.ebi.ac.uk/arrayexpress/experiments/browse.html) - [NCBI GEO datasets](http://www.ncbi.nlm.nih.gov/gds/) ...
written 5.8 years ago by pcantalupo120 • updated 8 weeks ago by RamRS25k

Latest awards to pcantalupo

Popular Question 4.4 years ago, created a question with more than 1,000 views. For convert from solid fastq to sanger fastq
Appreciated 5.5 years ago, created a post with more than 5 votes. For A: Is there an online resource with freely available transcriptomes data from?
Teacher 5.8 years ago, created an answer with at least 3 up-votes. For A: Is there an online resource with freely available transcriptomes data from?

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