| Component |
Version |
Inputs |
Outputs |
Description |
| Bam2Counts |
0.8 |
in |
out |
Converts Bam files to count matrices summarizing on gene, transcript or exon level. |
| Bam2Fastq |
0.1 |
in |
out |
Revert BAM file to Fastq file for realignment. |
| CSV2Excel |
1.3 |
csv, csv2, csv3, csv4, csv5, csv6, csv7, csv8, csv9, array, style, refs |
excelFile |
Converts a file from CSV format to Excel 97 format. |
| CSV2FASTA |
1.0 |
in |
out |
Converts the given comma separated value file to a FASTA file. |
| CSV2IDList |
1.4 |
in1, in2, in3, in4, in5, in6, in7, in8, in9, array |
out |
Extracts columns from each given CSV file and prints their content out without duplicates. |
| CSV2JSON |
1.0 |
in |
out |
Transforms a CSV file to JSON format. |
| CSV2Latex |
2.3 |
tabledata, refs |
report |
Converts the given comma separated value file to a LaTeX table. |
| CSV2SetList |
1.1 |
table1, table2, table3, table4, table5, table6, table7, table8, table9, tables |
lists |
Extracts identifier columns from the given CSV files and prints them out without duplicates. |
| CSVCleaner |
2.2 |
in |
out |
Cleans up CSV outputs, optionally removes file headers, quotations
and unused columns, and can reorder and rename columns. |
| CSVColRename |
0.1 |
in, reference |
out |
Changes column names in a CSV file given a reference file. |
| CSVJoin |
1.1 |
in1, in2, in3, in4, inDir, in |
out |
Joins rows from two or more CSV files from all the inputs, optionally using one column
as a matching key. |
| CSVListJoin |
3.2 |
folder, in, in1, in2, in3, in4 |
out |
Combines the content of input files into a single CSV file. |
| CSVSplit |
1.0 |
in |
out |
Divides the content of the given CSV to an array of multiple CSV files. |
| CSVSplitColumns |
0.1 |
in |
out |
Splits CSV into new files according to columns. |
| EncodeTextFile |
0.1 |
in |
out |
Convert general text files from one character encoding
to another. |
| Excel2CSV |
1.0 |
in |
out |
Converts a Microsoft Excel sheet to a CSV file. |
| Excel2Text |
0.1 |
in |
out |
Converts an Excel 97 xls-sheet to a text file. |
| ExpandCollapse |
1.4 |
in |
out |
Converts between the two possible representations of a relations with
multivalued columns. |
| ExtensiveCSVJoin |
0.1 |
files, fileDefs |
join |
Combines and cleans many files. |
| FASTA2CSV |
1.0 |
in |
out |
Converts a FASTA file to CSV. |
| FolderExtractor |
1.0 |
folder |
file1, file2, file3, file4, file5, file6, file7, file8, file9 |
Extracts files from a folder. |
| IDConvert |
1.0 |
in, conversionTable |
out |
Converts IDs from a column in a CSV file to other type of IDs
and/or combines duplicated rows into one. |
| JCSVJoin |
1.0 |
csv1, csv2, csv3, csv4, csv5, csv6, csv7, csv8, csvDir, array |
csv |
Java implementation of R CSVJoin component. |
| KeywordMatcher |
1.0 |
annotation, query |
mapping |
Identifies gene/protein IDs using fuzzy keyword matching between gene
aliases and descriptions. |
| Labels2Columns |
1.1 |
in |
out |
Reads columns of data, the unique entries of the label column are transposed
as column names. |
| LatexSearchReplace |
1.0 |
in, rules |
out |
Transforms text (including Tex) files in the given Latex directory by replacing certain string with
new values in the specified text files. |
| MatrixTranspose |
1.0 |
in |
out |
Transposes a matrix. |
| Properties2Latex |
1.2 |
props1, props2, props3, props4, props5, props6, props7, props8, props9 |
report |
Converts a set of properties files into a LaTeX fragment. |
| RowJoin |
0.5 |
matrix, thresholds |
table |
Joins duplicate id rows from a numeric matrix based
on the frequency of some given value. |
| SearchReplace |
1.1 |
in, rules |
out |
Transforms the given file by replacing certain string with new values. |
| SetTransformer |
0.6 |
transformation, set1, set2, set3, set4, set5 |
result |
Transforms sets using union, intersection, difference and other functions. |
| SourceCode2Latex |
1.0 |
in |
out |
Converts the given source code to a LaTeX fragment containing the given listing (lstset). |
| SyntaxHighlight |
1.1 |
in |
HTML, image, latex |
Reads a program code listing, and creates a syntax highlighted HTML file. |
| TableQuery |
1.3 |
table1, table2, table3, table4, table5, table6, table7, table8, table9, table10, table11, table12, table13, table14, table15, tables, queryFile, columnTypes |
table |
Executes an SQL query on CSV tables and creates a result table. |
| WekaAttributeSelection |
1.0 |
in |
out |
Selects parameters using Weka AttributeSelection classes. |
| WekaTransform |
1.3 |
in |
out |
Transforms data using filter classes implemented in Weka. |
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