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Last edited by josecolquitt; 05-17-2010, 11:03 AM. -
you'll probably need to give a few more details if you expect to get any help.. I this one 9000bp contig, 900 100bp Illumina reads, something else?
To what genome are you trying to align these bases? -
bwasw. it works for 100bp-100kbp, against the human genome.Comment
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Originally posted by josecolquitt View Post
While the topic is interesting - I think your forum etiquette is a bit... well let's just say it's unconventional. You'll have to be more specific than that if you want to engage with others and get feedback.
On a side note - it is nice to see there are aligners that can handle longer reads, considering what the future brings!Comment
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Problems with Mosaik package
My apologies, I was attempting to delete the entire entry and revise. I am currently working with Simian Immunodeficiency Virus short reads obtained from 454. I am working at an internship trying to gain experience in the bioinformatics field. I am trying to use the Mosaik package in an attempt to sequence these short reads. However, I am having problems with the initialization of this package. Inside the read-me is a tutorial of sorts that guides the user through a demo of the command lists, and then gives a tutorial working with a sample set of C. elegans chromosome 2 reads.
When I attempt to click on any of the programs within the bin directory, a pop up window will display for a fraction of a second and then disappear. I am quite sure that this is simply a result of my inexperience with these programs. Any help or guidance would be greatly appreciated.Comment
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Genomics studies in neuroscience face a special challenge due to the brain’s complexity and scarcity of samples. Mapping changes in cell type and state using conventional next-generation sequencing methods remains challenging. Advances in technologies like single-cell sequencing, spatial transcriptomics, and long-read sequencing have opened the door to deeper studies of the brain and diseases like Alzheimer’s, amyotrophic lateral sclerosis (ALS), and schizophrenia.
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Love this - good data definitely starts from good input, and poor input can only give relatively poor data. I particularly like the mention of Nanodrop/absorbance based methods for quantification. It's such a toss up if you'll get an accurate reading or what amounts to a randomly generated number, and a lot of library/sequencing related issues can be traced back to poor quant.07-01-2026, 11:43 AM
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