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MorrellLAB / sequence_handling

A series of scripts to automate sequence workflows
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Quality_Assessment fails to report the correct read length #36

Closed Aerin13 closed 6 years ago

Aerin13 commented 6 years ago

Quality_Assessment fails to report the correct read length in the quality summary file when using Illumina 1.5 encoding.

fervet01 commented 6 years ago

What does this mean?..

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On Mar 16, 2018, at 4:03 PM, Skylar Wyant notifications@github.com wrote:

Quality_Assessment fails to report the correct read length in the quality summary file when using Illumina 1.5 encoding.

— You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub https://github.com/MorrellLAB/sequence_handling/issues/36, or mute the thread https://github.com/notifications/unsubscribe-auth/APmQCxJ5KHkUeumVpSkHOvnnuORy6xXUks5tfCiZgaJpZM4SubxC .

Aerin13 commented 6 years ago

Emily's Drosophila FASTQ files use a different quality encoding than our other FASTQ files, so it messes up the read length column in the Quality_Assessment summary table that's output by sequence_handling. It outputs a month and year instead of a length in base pairs.

This shouldn't be anything that you should worry about for your samples. It's just a reminder for me to fix this issue next week when I have time.

fervet01 commented 6 years ago

Ok. Thanks for the explanation.

Sent from my iPhone

On Mar 17, 2018, at 6:41 PM, Skylar Wyant notifications@github.com wrote:

Emily's Drosophila FASTQ files use a different quality encoding than our other FASTQ files, so it messes up the read length column in the Quality_Assessment summary table that's output by sequence_handling. It outputs a month and year instead of a length in base pairs.

This shouldn't be anything that you should worry about for your samples. It's just a reminder for me to fix this issue next week when I have time.

— You are receiving this because you commented. Reply to this email directly, view it on GitHub https://github.com/MorrellLAB/sequence_handling/issues/36#issuecomment-373960990, or mute the thread https://github.com/notifications/unsubscribe-auth/APmQC9zB-Yg-T0zTqkt2OJkX_bsX5F0Qks5tfZ8TgaJpZM4SubxC .