| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/xuebing/sharplabtool/fastq_groomer/1.0.4 (this tool) |
| fastq_groomer |
| Requirements (dependencies defined in the <requirements> tag set) |
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
input_file: sanger_full_range_original_sanger.fastqsanger input_type: sanger options_type_selector: basic |
output_file: sanger_full_range_original_sanger.fastqsanger |
sanger_full_range_original_sanger.fastqsanger |
| Test-2 |
input_file: sanger_full_range_as_cssanger.fastqcssanger input_type: cssanger options_type_selector: basic |
output_file: sanger_full_range_as_cssanger.fastqcssanger |
sanger_full_range_as_cssanger.fastqcssanger |
| Test-3 |
input_file: illumina_full_range_original_illumina.fastqillumina input_type: illumina options_type_selector: basic |
output_file: illumina_full_range_as_sanger.fastqsanger |
illumina_full_range_original_illumina.fastqillumina illumina_full_range_as_sanger.fastqsanger |
| Test-4 |
input_file: solexa_full_range_original_solexa.fastqsolexa input_type: solexa options_type_selector: basic |
output_file: solexa_full_range_as_sanger.fastqsanger |
solexa_full_range_original_solexa.fastqsolexa solexa_full_range_as_sanger.fastqsanger |
| Test-5 |
input_file: sanger_full_range_as_illumina.fastqillumina input_type: sanger options_type_selector: basic |
output_file: sanger_full_range_as_illumina.fastqillumina |
sanger_full_range_as_illumina.fastqillumina |
| Test-6 |
input_file: illumina_full_range_original_illumina.fastqillumina input_type: illumina options_type_selector: advanced output_type: illumina force_quality_encoding: None summarize_input: summarize_input |
output_file: illumina_full_range_original_illumina.fastqillumina |
illumina_full_range_original_illumina.fastqillumina |
| Test-7 |
input_file: illumina_full_range_original_illumina.fastqillumina input_type: illumina options_type_selector: advanced output_type: sanger force_quality_encoding: None summarize_input: summarize_input |
output_file: illumina_full_range_as_sanger.fastqsanger |
illumina_full_range_original_illumina.fastqillumina illumina_full_range_as_sanger.fastqsanger |
| Test-8 |
input_file: illumina_full_range_original_illumina.fastqillumina input_type: illumina options_type_selector: advanced output_type: solexa force_quality_encoding: None summarize_input: summarize_input |
output_file: illumina_full_range_as_solexa.fastqsolexa |
illumina_full_range_original_illumina.fastqillumina illumina_full_range_as_solexa.fastqsolexa |
| Test-9 |
input_file: illumina_full_range_original_illumina.fastqillumina input_type: illumina options_type_selector: advanced output_type: cssanger force_quality_encoding: None summarize_input: summarize_input |
output_file: illumina_full_range_as_cssanger.fastqcssanger |
illumina_full_range_original_illumina.fastqillumina illumina_full_range_as_cssanger.fastqcssanger |
| Test-10 |
input_file: sanger_full_range_original_sanger.fastqsanger input_type: sanger options_type_selector: advanced output_type: sanger force_quality_encoding: None summarize_input: summarize_input |
output_file: sanger_full_range_original_sanger.fastqsanger |
sanger_full_range_original_sanger.fastqsanger |
| Test-11 |
input_file: sanger_full_range_original_sanger.fastqsanger input_type: sanger options_type_selector: advanced output_type: illumina force_quality_encoding: None summarize_input: summarize_input |
output_file: sanger_full_range_as_illumina.fastqillumina |
sanger_full_range_original_sanger.fastqsanger sanger_full_range_as_illumina.fastqillumina |
| Test-12 |
input_file: sanger_full_range_original_sanger.fastqsanger input_type: sanger options_type_selector: advanced output_type: solexa force_quality_encoding: None summarize_input: summarize_input |
output_file: sanger_full_range_as_solexa.fastqsolexa |
sanger_full_range_original_sanger.fastqsanger sanger_full_range_as_solexa.fastqsolexa |
| Test-13 |
input_file: sanger_full_range_original_sanger.fastqsanger input_type: sanger options_type_selector: advanced output_type: cssanger force_quality_encoding: None summarize_input: summarize_input |
output_file: sanger_full_range_as_cssanger.fastqcssanger |
sanger_full_range_original_sanger.fastqsanger sanger_full_range_as_cssanger.fastqcssanger |
| Test-14 |
input_file: solexa_full_range_original_solexa.fastqsolexa input_type: solexa options_type_selector: advanced output_type: solexa force_quality_encoding: None summarize_input: summarize_input |
output_file: solexa_full_range_original_solexa.fastqsolexa |
solexa_full_range_original_solexa.fastqsolexa |
| Test-15 |
input_file: solexa_full_range_original_solexa.fastqsolexa input_type: solexa options_type_selector: advanced output_type: illumina force_quality_encoding: None summarize_input: summarize_input |
output_file: solexa_full_range_as_illumina.fastqillumina |
solexa_full_range_original_solexa.fastqsolexa solexa_full_range_as_illumina.fastqillumina |
| Test-16 |
input_file: solexa_full_range_original_solexa.fastqsolexa input_type: solexa options_type_selector: advanced output_type: sanger force_quality_encoding: None summarize_input: summarize_input |
output_file: solexa_full_range_as_sanger.fastqsanger |
solexa_full_range_original_solexa.fastqsolexa solexa_full_range_as_sanger.fastqsanger |
| Test-17 |
input_file: solexa_full_range_original_solexa.fastqsolexa input_type: solexa options_type_selector: advanced output_type: cssanger force_quality_encoding: None summarize_input: summarize_input |
output_file: solexa_full_range_as_cssanger.fastqcssanger |
solexa_full_range_original_solexa.fastqsolexa solexa_full_range_as_cssanger.fastqcssanger |
| Test-18 |
input_file: sanger_full_range_as_cssanger.fastqcssanger input_type: cssanger options_type_selector: advanced output_type: cssanger force_quality_encoding: None summarize_input: summarize_input |
output_file: sanger_full_range_as_cssanger.fastqcssanger |
sanger_full_range_as_cssanger.fastqcssanger |
| Test-19 |
input_file: sanger_full_range_as_cssanger.fastqcssanger input_type: cssanger options_type_selector: advanced output_type: sanger force_quality_encoding: None summarize_input: summarize_input |
output_file: sanger_full_range_original_sanger.fastqsanger |
sanger_full_range_as_cssanger.fastqcssanger sanger_full_range_original_sanger.fastqsanger |
| Test-20 |
input_file: sanger_full_range_as_cssanger.fastqcssanger input_type: cssanger options_type_selector: advanced output_type: illumina force_quality_encoding: None summarize_input: summarize_input |
output_file: sanger_full_range_as_illumina.fastqillumina |
sanger_full_range_as_cssanger.fastqcssanger sanger_full_range_as_illumina.fastqillumina |
| Test-21 |
input_file: sanger_full_range_as_cssanger.fastqcssanger input_type: cssanger options_type_selector: advanced output_type: solexa force_quality_encoding: None summarize_input: summarize_input |
output_file: sanger_full_range_as_solexa.fastqsolexa |
sanger_full_range_as_cssanger.fastqcssanger sanger_full_range_as_solexa.fastqsolexa |
| Test-22 |
input_file: sanger_full_range_as_cssanger_adapter_base_with_quality_score.fastqcssanger_fake_score input_type: cssanger options_type_selector: advanced output_type: cssanger force_quality_encoding: None summarize_input: summarize_input |
output_file: sanger_full_range_as_cssanger.fastqcssanger |
sanger_full_range_as_cssanger_adapter_base_with_quality_score.fastqcssanger_fake_score sanger_full_range_as_cssanger.fastqcssanger |
| Test-23 |
input_file: wrapping_original_sanger.fastqsanger input_type: sanger options_type_selector: advanced output_type: sanger force_quality_encoding: None summarize_input: summarize_input |
output_file: wrapping_as_sanger.fastqsanger |
wrapping_original_sanger.fastqsanger wrapping_as_sanger.fastqsanger |
| Test-24 |
input_file: wrapping_original_sanger.fastqsanger input_type: sanger options_type_selector: advanced output_type: illumina force_quality_encoding: None summarize_input: summarize_input |
output_file: wrapping_as_illumina.fastqillumina |
wrapping_original_sanger.fastqsanger wrapping_as_illumina.fastqillumina |
| Test-25 |
input_file: wrapping_original_sanger.fastqsanger input_type: sanger options_type_selector: advanced output_type: solexa force_quality_encoding: None summarize_input: summarize_input |
output_file: wrapping_as_solexa.fastqsolexa |
wrapping_original_sanger.fastqsanger wrapping_as_solexa.fastqsolexa |
| Test-26 |
input_file: sanger_full_range_as_decimal_sanger.fastqsanger input_type: sanger options_type_selector: advanced output_type: sanger force_quality_encoding: ascii summarize_input: summarize_input |
output_file: sanger_full_range_original_sanger.fastqsanger |
sanger_full_range_as_decimal_sanger.fastqsanger sanger_full_range_original_sanger.fastqsanger |
| Test-27 |
input_file: sanger_full_range_original_sanger.fastqsanger input_type: sanger options_type_selector: advanced output_type: sanger force_quality_encoding: decimal summarize_input: summarize_input |
output_file: sanger_full_range_as_decimal_sanger.fastqsanger |
sanger_full_range_original_sanger.fastqsanger sanger_full_range_as_decimal_sanger.fastqsanger |
| Test-28 |
input_file: sanger_full_range_as_tab_decimal_sanger.fastqsanger input_type: sanger options_type_selector: advanced output_type: sanger force_quality_encoding: ascii summarize_input: summarize_input |
output_file: sanger_full_range_original_sanger.fastqsanger |
sanger_full_range_as_tab_decimal_sanger.fastqsanger sanger_full_range_original_sanger.fastqsanger |
| Test-29 |
input_file: solexa_full_range_as_decimal_solexa.fastqsolexa input_type: solexa options_type_selector: advanced output_type: solexa force_quality_encoding: ascii summarize_input: summarize_input |
output_file: solexa_full_range_original_solexa.fastqsolexa |
solexa_full_range_as_decimal_solexa.fastqsolexa solexa_full_range_original_solexa.fastqsolexa |
| Test-30 |
input_file: solexa_full_range_original_solexa.fastqsolexa input_type: solexa options_type_selector: advanced output_type: solexa force_quality_encoding: decimal summarize_input: summarize_input |
output_file: solexa_full_range_as_decimal_solexa.fastqsolexa |
solexa_full_range_original_solexa.fastqsolexa solexa_full_range_as_decimal_solexa.fastqsolexa |