diff --git a/docs/images/taxprofiler_tube.pdf b/docs/images/taxprofiler_tube.pdf index b3550c36..a90aa4a0 100644 Binary files a/docs/images/taxprofiler_tube.pdf and b/docs/images/taxprofiler_tube.pdf differ diff --git a/docs/images/taxprofiler_tube.png b/docs/images/taxprofiler_tube.png index b5363e39..4af7a1e7 100644 Binary files a/docs/images/taxprofiler_tube.png and b/docs/images/taxprofiler_tube.png differ diff --git a/docs/images/taxprofiler_tube.svg b/docs/images/taxprofiler_tube.svg index e8e6fc4f..f13e193b 100644 --- a/docs/images/taxprofiler_tube.svg +++ b/docs/images/taxprofiler_tube.svg @@ -26,7 +26,7 @@ inkscape:pageopacity="0.0" inkscape:pagecheckerboard="true" inkscape:document-units="mm" - showgrid="true" + showgrid="false" inkscape:snap-bbox="true" inkscape:bbox-nodes="true" inkscape:snap-bbox-edge-midpoints="false" @@ -36,9 +36,9 @@ fit-margin-left="0" fit-margin-right="0" fit-margin-bottom="0" - inkscape:zoom="1.4206694" - inkscape:cx="408.96215" - inkscape:cy="673.62613" + inkscape:zoom="1.0377583" + inkscape:cx="506.86177" + inkscape:cy="438.44506" inkscape:window-width="1920" inkscape:window-height="1136" inkscape:window-x="0" @@ -55,7 +55,7 @@ spacingy="1" spacingx="1" units="mm" - visible="true" />SEQUENCING(SEQUENCINGQUALITY CONTROLQUALITY CONTROL)FILTERING)(COVERAGEESTIMATION)(HOST REMOVAL)(ADAPTER TRIMMING & MERGING)(HOST REMOVAL)TAXONOMIC CLASSIFICATIONcatminimap2samtools statssamtoolsstatsFiltlongnanoqFiltlongKrona(Krona)PorechopPorechop_ABIPorechop(LENGTH FILTERING)(LENGTH FILTERING)v1.2v1.2 + sodipodi:nodetypes="cc" /> diff --git a/docs/usage.md b/docs/usage.md index ad735151..34ffcb46 100644 --- a/docs/usage.md +++ b/docs/usage.md @@ -276,7 +276,7 @@ Before using this tool please note the following caveats: - It is not recommended to keep unmerged (`--shortread_qc_includeunmerged`) reads when using the calculation. - Your shortest reads _after_ processing should not go below 24bp - If the 'kmer' value is not correct, make sure your shortest reads _after_ processing is not less than 24bp. + If the 'kmer' value is not correct, make sure your shortest reads _after_ processing is not less than 24bp. If this is the case you will need to specify in a custom config @@ -289,6 +289,7 @@ Before using this tool please note the following caveats: ``` Where `` should be at least the shortest read in your library + ::: #### Complexity Filtering