| AlignedFractionHistogram.csv | Histogram of aligned fraction for all computed alignments. |
| AlignmentDriftHistogram.csv | Histogram of marker drift for all computed alignments. |
| AlignmentMarkerCountHistogram.csv | Histogram of number of aligned markers for all computed alignments. |
| AlignmentSkipHistogram.csv | Histogram of marker skip for all computed alignments. |
| AlignmentTrimHistogram.csv | Histogram of marker trim for all computed alignments. |
| Assembly-BothStrands-NoSequence.gfa | Assembly in GFA format (compact output without sequence, both strands). |
| Assembly-BothStrands.gfa | Assembly in GFA format (both strands). |
| Assembly.fasta | Assembly in FASTA format (one strand only). |
| Assembly.gfa | Assembly in GFA format (one strand only). |
| AssemblySummary.csv | List of assembled segments in order of decreasing length. |
| AssemblySummary.html | Assembly summary information in html format. |
| AssemblySummary.json | Assembly summary information in json format. |
| Binned-ReadLengthHistogram.csv | Read length distribution in 1 kb bins. |
| DisjointSetsHistogram.csv | Coverage histogram for all disjoint sets. |
| index.html | Html file containing a list of assembly output files and their descriptions. |
| LowHashBucketHistogram.csv | MinHash bucket population histogram. |
| MarkerGraphEdgeCoverageHistogram.csv | Coverage histogram for marker graph edges. |
| MarkerGraphVertexCoverageHistogram.csv | Coverage histogram for marker graph vertices. |
| performance.log | Performance log output. Contains messages that are mnostly useful for performance analysis. |
| ReadGraphComponents.csv | Information about connected components of the read graph. |
| ReadLengthHistogram.csv | Detailed read length distribution. |
| ReadLowHashStatistics.csv | MinHash/LowHash statistics for each read. |
| ReadSummary.csv | Summary file containing one line of information for each read. |
| shasta.conf | Configuration file containing options in effect for this assembly. |
| stdout.log | Assembly log output. |
| SuppressedAlignmentCandidates.csv | Details of suppressed alignment candidates. |