Loading README.md +6 −0 Original line number Diff line number Diff line Loading @@ -115,6 +115,12 @@ threshold to make a correction by setting **--bc-probability-threshold** corrections. For scATAC-seq data with multiple read and barcode files, you can use "," to concatenate multiple input files as the example [above](#general). Chromap also supports user-defined barcode format, including mixed barcode and genomic data case. User can specify the sequence structure through option "--read-format". The value is comma-separated string, each field is also semi-comma-splitted string: [r1|r2|bc]:start:end. The start and end(inclusive, -1 means to the read end). For the example that the barcode is in read1's first 16bp, one can use the option "--read-format bc:0:15,r1:16:-1". The BED format (fragment file) for bulk and single-cell is different except for the first three columns. For bulk data, the columns are Loading Loading
README.md +6 −0 Original line number Diff line number Diff line Loading @@ -115,6 +115,12 @@ threshold to make a correction by setting **--bc-probability-threshold** corrections. For scATAC-seq data with multiple read and barcode files, you can use "," to concatenate multiple input files as the example [above](#general). Chromap also supports user-defined barcode format, including mixed barcode and genomic data case. User can specify the sequence structure through option "--read-format". The value is comma-separated string, each field is also semi-comma-splitted string: [r1|r2|bc]:start:end. The start and end(inclusive, -1 means to the read end). For the example that the barcode is in read1's first 16bp, one can use the option "--read-format bc:0:15,r1:16:-1". The BED format (fragment file) for bulk and single-cell is different except for the first three columns. For bulk data, the columns are Loading
