These are chat archives for dereneaton/ipyrad

Jan 2017
Jan 10 2017 08:12
Hi, Can I ask for a feature? it is really inconvenient that the input fastq files must include R1 or R2 in the file names. Maybe you can make it more flexible? Maybe add a parameter that states the R1/R2 pattern/suffix. Thanks in advance.
Jan 10 2017 15:56
Hi @dereneaton & @isaacovercast I was wondering if it would be possible to add an option to the assembly methods in which reference genomes for the organism of interest and symbiotic partners are available. For now we can do a denovo-reference but what if we could use a reference (e.g. a transcriptome) to do the assembly and use another transcriptome of the symbiotic partners to get rid of them?