temp-dir ¶Ĭreate temporary files in a specified directory. Repeat the -field option for each additional field. Passing ‘count’ as the target name will override the default behavior of storing pair counts. float), and/or agg= to specify an aggregation function different from sum (e.g. Optionally, append : followed by dtype= to specify the data type (e.g. Specify quantitative input fields to aggregate into value columns using the syntax -field =. All input records that map to the lower triangle will be discarded! | If you wish to treat lower- and upper-triangle input data as distinct, use the -no-symmetric-upper option. duplex: Incoming data contains upper- and lower-triangle duplicates. | unique: Incoming data comes from a unique half of a symmetric map, regardless of how the coordinates of a pair are ordered. This allows for distinct upper- and lower-triangle values -input-copy-status ¶Ĭopy status of input data when using symmetric-upper storage. N, -no-symmetric-upper ¶Ĭreate a complete square matrix without implicit symmetry. Positions are zero-based -comment-char ¶Ĭomment character that indicates lines to ignore. Number of input lines to load at a time -0, -zero-based ¶ Pos2 field number (one-based) -chunksize ¶ Pos1 field number (one-based) -c2, -chrom2 ¶Ĭhrom2 field number (one-based) -p2, -pos2 ¶ Path to JSON file containing user metadata. See the cooler_cli.ipynb Jupyter Notebook for specific examples on usage: ( ).Ĭooler cload pairs BINS PAIRS_PATH COOL_PATH On error, drop into the post-mortem debugger shell. Generate fragment-delimited genomic bins. Generate a multi-resolution cooler file by coarsening.ĭisplay and browse a cooler with matplotlib.Ĭopy a cooler from one file to another or within the same file.Ĭreate a hard, soft or external link to a cooler. Merge multiple coolers with identical axes. Create a cooler from genomic point pairs and bins.Ĭreate a cooler from a pre-binned matrix.
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