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GitHub / kevinrue/rnafastqdeconvolute issues and pull requests

#27 - Stampede fuzzysearch

Pull Request - State: closed - Opened by taleinat over 10 years ago

#26 - Stampede fuzzysearch

Pull Request - State: closed - Opened by taleinat over 10 years ago - 4 comments

#25 - Several significant optimizations (plus a few minor fixes)

Pull Request - State: open - Opened by taleinat over 10 years ago - 4 comments

#24 - Implement the trimming feature

Issue - State: closed - Opened by kevinrue over 10 years ago

#22 - Check that Illumina version is >= 1

Issue - State: closed - Opened by kevinrue over 10 years ago

#22 - Check that Illumina version is >= 1

Issue - State: closed - Opened by kevinrue over 10 years ago

#20 - Check that user-defined Phred threshold is a realistic value

Issue - State: open - Opened by kevinrue over 10 years ago

#19 - Check that the barcode sequenced is in the expected format

Issue - State: open - Opened by kevinrue over 10 years ago - 1 comment

#18 - Check that adapter sequence is shorter that read length

Issue - State: open - Opened by kevinrue over 10 years ago

#17 - Check that trimming if specified leaves more than 1 base in the read

Issue - State: closed - Opened by kevinrue over 10 years ago - 2 comments
Labels: enhancement

#16 - Create an adapter object class

Issue - State: closed - Opened by kevinrue over 10 years ago
Labels: enhancement

#15 - Code for reverse reads

Issue - State: closed - Opened by davemagee76 over 10 years ago

#10 - Create a function that checks the overall quality of a read.

Issue - State: closed - Opened by kevinrue over 10 years ago

#9 - Create a function that trims a read sequence

Issue - State: closed - Opened by kevinrue over 10 years ago

#8 - Create an instance of FastqgzParser that parses the file with reverse reads

Issue - State: closed - Opened by kevinrue over 10 years ago - 1 comment
Labels: duplicate

#7 - Create a function that read a file specifying the adapter sequences to look for

Issue - State: closed - Opened by kevinrue over 10 years ago - 1 comment

#6 - Create a function that read a file mapping barcodes to samples

Issue - State: closed - Opened by kevinrue over 10 years ago - 1 comment

#5 - Create a class that represents a RNA-seq read

Issue - State: closed - Opened by kevinrue over 10 years ago

#4 - Create a class that parses fastq.gz files

Issue - State: closed - Opened by kevinrue over 10 years ago

#3 - Check that all madatory arguments are present in the command line

Issue - State: closed - Opened by kevinrue over 10 years ago - 3 comments
Labels: wontfix

#2 - Proper docstring for the main script

Issue - State: closed - Opened by kevinrue over 10 years ago

#1 - Update the command processing for real options

Issue - State: closed - Opened by kevinrue over 10 years ago
Labels: bug