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benedictpaten / marginAlign

UCSC Nanopore
MIT License
43 stars 13 forks source link

input fasta files #33

Open ngotoor2 opened 7 years ago

ngotoor2 commented 7 years ago

Hi, Can we use .fasta as input read files? Is it hard-coded to work only with only .fastaq files as input? If yes, where is the code for that?

mitenjain commented 7 years ago

Hello,

Yes, the present implementation works only with fastq. It is something we have been intending to fix for some time, since we internally convert fastq to fasta before aligning the sequences. I will try to push a patch this week to fix this.

Sorry for the hassle. -Miten

ngotoor2 commented 7 years ago

Awesome and thanks! I'll check back later this week for any updated changes.

ngotoor2 commented 7 years ago

Hi Miten, Just wondering if the implementation supports .fasta as input now?

mitenjain commented 7 years ago

Hello,

Sorry for the delay. I'll have that patched up in a couple of days. I'll let you know when done.