Hi ! I really would like to use your tool to compare some samples of interest with your compendium.
I see that you suggest to use input data from the Treehouse pipelines - but I cannot use the tool at the moment because the docker image seems deprecated https://github.com/UCSC-Treehouse/pipelines/issues/42.
Can I obtain the rsem_genes.results directly from RSEM https://github.com/deweylab/RSEM ?
As well, can I obtain the QC files by directly run the mend_qc tool https://github.com/UCSC-Treehouse/bam-umend-qc ?
Or, should I need other outputs files from the Treehouse pipelines ?
Thanks in advance,
Noemi
Hi ! I really would like to use your tool to compare some samples of interest with your compendium.
I see that you suggest to use input data from the Treehouse pipelines - but I cannot use the tool at the moment because the docker image seems deprecated https://github.com/UCSC-Treehouse/pipelines/issues/42.
Can I obtain the rsem_genes.results directly from RSEM https://github.com/deweylab/RSEM ?
As well, can I obtain the QC files by directly run the mend_qc tool https://github.com/UCSC-Treehouse/bam-umend-qc ?
Or, should I need other outputs files from the Treehouse pipelines ?
Thanks in advance,
Noemi