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Magdoll edited this page June 11, 2014 · 30 revisions
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A hands on tutorial of three aligners: BLAT, BLASR, and GMAP
Bioinfx study: Sampling depth? Simulated rarefaction curves based on real data
cDNA_primer tofu CHANGELOG
Comparison of Reads Of Insert parameters and full length detection
Error Correction using Illumina short reads
Glossary for PacBio transcriptome
Home
Iso Seq FAQ
Iso Seq protocol: Bioinformatics study of common concerns
PacBio In House Transcriptome Datasets
RS_IsoSeq (v2.2.0) Tutorial #1. Getting full length reads
RS_IsoSeq (v2.2.0) Tutorial #2. Isoform level clustering (ICE and Quiver)
Setting up virtualenv and installing pbtranscript tofu
tofu runtime and memory usage
tofu Tutorial #1. Getting full length transcripts
tofu Tutorial #2. Isoform level clustering (ICE and Quiver)
tofu Tutorial #3. Removing redundant transcripts
Understanding PacBio transcriptome data
Useful API calls in pbtranscript: SAM parser, etc
What is pbtranscript tofu? Do I need it?
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Clone this wiki locally
? ?Clone in Desktop Welcome to the Iso-Seq wiki!

?Iso-Seq Datasets
•PacBio In-House Transcriptome Datasets
?Code Repository Information
•cDNA_primer-tofu-CHANGELOG
?Background Information
•Understanding PacBio transcriptome data

•A hands on tutorial of three aligners: BLAT, BLASR, and GMAP

•Iso-Seq protocol: Bioinformatics study of common concerns

•Error Correction using Illumina short reads

•Glossary for PacBio transcriptome

?PacBio Datasets
•PacBio In House Transcriptome Datasets
?RS_IsoSeq (official pipeline) tutorial
•RS_IsoSeq (v2.2.0) Tutorial #1. Getting full length reads

•RS_IsoSeq (v2.2.0) Tutorial #2. Isoform level clustering (ICE and Quiver)

•Iso Seq FAQ

?GitHub code (pbtranscript-tofu) tutorial
•What is pbtranscript tofu? Do I need it?

•Setting up virtualenv and installing pbtranscript tofu

•tofu Tutorial #1. Getting full length transcripts

•tofu Tutorial #2. Isoform level clustering (ICE and Quiver)

•tofu Tutorial #3. Removing redundant transcripts

•tofu runtime and memory usage

•(same link as above) Iso Seq FAQ


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https://github.com/PacificBiosciences/cDNA_primer/wiki