Mercurial > repos > rliterman > csp2
annotate CSP2/CSP2_env/env-d9b9114564458d9d-741b3de822f2aaca6c6caa4325c4afce/share/man/man1/mash.1 @ 68:5028fdace37b
planemo upload commit 2e9511a184a1ca667c7be0c6321a36dc4e3d116d
| author | jpayne |
|---|---|
| date | Tue, 18 Mar 2025 16:23:26 -0400 |
| parents | |
| children |
| rev | line source |
|---|---|
| jpayne@68 | 1 '\" t |
| jpayne@68 | 2 .\" Title: mash |
| jpayne@68 | 3 .\" Author: [see the "AUTHOR(S)" section] |
| jpayne@68 | 4 .\" Generator: Asciidoctor 2.0.10 |
| jpayne@68 | 5 .\" Date: 2019-12-13 |
| jpayne@68 | 6 .\" Manual: \ \& |
| jpayne@68 | 7 .\" Source: \ \& |
| jpayne@68 | 8 .\" Language: English |
| jpayne@68 | 9 .\" |
| jpayne@68 | 10 .TH "MASH" "1" "2019-12-13" "\ \&" "\ \&" |
| jpayne@68 | 11 .ie \n(.g .ds Aq \(aq |
| jpayne@68 | 12 .el .ds Aq ' |
| jpayne@68 | 13 .ss \n[.ss] 0 |
| jpayne@68 | 14 .nh |
| jpayne@68 | 15 .ad l |
| jpayne@68 | 16 .de URL |
| jpayne@68 | 17 \fI\\$2\fP <\\$1>\\$3 |
| jpayne@68 | 18 .. |
| jpayne@68 | 19 .als MTO URL |
| jpayne@68 | 20 .if \n[.g] \{\ |
| jpayne@68 | 21 . mso www.tmac |
| jpayne@68 | 22 . am URL |
| jpayne@68 | 23 . ad l |
| jpayne@68 | 24 . . |
| jpayne@68 | 25 . am MTO |
| jpayne@68 | 26 . ad l |
| jpayne@68 | 27 . . |
| jpayne@68 | 28 . LINKSTYLE blue R < > |
| jpayne@68 | 29 .\} |
| jpayne@68 | 30 .SH "NAME" |
| jpayne@68 | 31 mash \- fast genome and metagenome distance estimation using MinHash |
| jpayne@68 | 32 .SH "SYNOPSIS" |
| jpayne@68 | 33 .sp |
| jpayne@68 | 34 \fBmash\fP <command> [options] [arguments ...] |
| jpayne@68 | 35 .SH "DESCRIPTION" |
| jpayne@68 | 36 .sp |
| jpayne@68 | 37 \fBmash\fP is the main executable for the \fBMash\fP software. The actual |
| jpayne@68 | 38 functionality is provided by the subtools (\(aqcommands\(aq): |
| jpayne@68 | 39 .SS "Commands" |
| jpayne@68 | 40 .sp |
| jpayne@68 | 41 \fBbounds\fP |
| jpayne@68 | 42 .RS 4 |
| jpayne@68 | 43 Print a table of Mash error bounds. |
| jpayne@68 | 44 .RE |
| jpayne@68 | 45 .sp |
| jpayne@68 | 46 \fBdist\fP |
| jpayne@68 | 47 .RS 4 |
| jpayne@68 | 48 Estimate the distance of query sequences to references. |
| jpayne@68 | 49 .RE |
| jpayne@68 | 50 .sp |
| jpayne@68 | 51 \fBinfo\fP |
| jpayne@68 | 52 .RS 4 |
| jpayne@68 | 53 Display information about sketch files. |
| jpayne@68 | 54 .RE |
| jpayne@68 | 55 .sp |
| jpayne@68 | 56 \fBpaste\fP |
| jpayne@68 | 57 .RS 4 |
| jpayne@68 | 58 Create a single sketch file from multiple sketch files. |
| jpayne@68 | 59 .RE |
| jpayne@68 | 60 .sp |
| jpayne@68 | 61 \fBscreen\fP |
| jpayne@68 | 62 .RS 4 |
| jpayne@68 | 63 Determine whether query sequences are within a larger pool of sequences. |
| jpayne@68 | 64 .RE |
| jpayne@68 | 65 .sp |
| jpayne@68 | 66 \fBsketch\fP |
| jpayne@68 | 67 .RS 4 |
| jpayne@68 | 68 Create sketches (reduced representations for fast operations). |
| jpayne@68 | 69 .RE |
| jpayne@68 | 70 .sp |
| jpayne@68 | 71 \fBtriangle\fP |
| jpayne@68 | 72 .RS 4 |
| jpayne@68 | 73 Estimate a lower\-triangular distance matrix. |
| jpayne@68 | 74 .RE |
| jpayne@68 | 75 .SH "SEE ALSO" |
| jpayne@68 | 76 .sp |
| jpayne@68 | 77 mash\-dist(1), mash\-info(1), mash\-paste(1), mash\-screen(1), mash\-sketch(1), mash\-triangle(1) |