Eileen Xue

extract_clusters and cluster_summary are designed to make cluster step results readable. Only the cluster step is necessary step before the correction step.

Hi there, Do you run into any problems when using RATTLE with the example toyset dataset? Can you please check whether your reads contain any invalid bases? RATTLE could run...

Hi, Valid bases are A,T,C,G,U. All other bases in reads are considered as invalid, including 'N'. No need to worry about 'N', RATTLE will filter it out. Could you please...

Hi, Does the CPUs support sse4.1? RATTLE sub-module spoa has this error "Illegal instruction (core dumped)" with some old processors. Eileen

Hi, 1. I notice the extract clusters step command is incorrect, it should be `-c clusters.out`. 2. Can you run RATTLE with the [example dataset](https://github.com/comprna/RATTLE#example-dataset) correctly? 3. If it is...

Hi, Try to replace `spoa/CMakeLists.txt` Line 17-21 with the following code ``` option(spoa_optimize_for_native "Build with -march=native" ON) option(spoa_optimize_for_portability "Build with -msse4.1" ON) option(spoa_generate_dispatch "Use SIMDe to generate x86 dispatch" OFF)...

Hi, What operation system and version you are using? And try to remove the previous version and reinstall RATTLE with the following command ``` cd RATTLE make clean ./build.sh ```...

Hi, This issue seems like your system was running out of available threads. Using fewer threads to run the error correction step should solve this issue. Thanks, Eileen

Hi, RATTLE can process fasta format inputs. However, we recommend using fastq inputs. Since the error correction and polishing step needs to use the quality values, the results of fasta...