#FMINER ATRIBUTE MANUAL#

However, extracting data manually from web pages can be a tedious and redundant process, which justifies an entire ecosystem of multiple tools and libraries built for automating the data-extraction process.

#FMINER ATRIBUTE MANUAL#

It can either be a manual process or an automated one. Web scraping, in simple terms, is the act of extracting data from websites. Please keep in mind the importance of scraping with respect. This article sheds light on some of the obstructions a programmer may face while web scraping, and different ways to get around them.

It's like a cat and mouse game between the website owner and the developer operating in a legal gray area. liblast/liblast.Scraping is a simple concept in its essence, but it's also tricky at the same time. # LAST-PM descriptors (min frequency 5, max hops 20): # All 20-frequent patterns (frequent subgraph mining) # ALL 2-frequent and 95%-significant subgraphs (frequent and correlated subgraph mining) # same as above, but much slower (explicitly no dynamic UB pruning) # BBRC representatives (min frequency 2, min significance 95%), using dynamic UB pruning In any case, 1-frequent patterns are not refined further, unless the -s switch is used. FMINER_NR_HITS : Display number of times each fragment occurs in the output (only when FMINER_LAZAR is not set). FMINER_SILENT : Redirect STDERR (debug output) of fminer to local file 'fminer-debug.txt' FMINER_NO_AROMATIC_WC : Disallow aromatic wildcard bonds on aliphatic bonds, when aromatic perception was switched off ('-a') (e.g. FMINER_PVALUES : Produce p-values instead of chi-square values (e.g. FMINER_LAZAR : Produce output in linfrag format which can be used as input to Lazar (e.g. FMINER_SMARTS : Produce output in SMARTS format (e.g. By default, output consists of blocks of gSpan graphs. Options for Usage 1 (LAtent STructure-Pattern Mining):ĮNVIRONMENT VARIABLES (ONLY FOR BBRC MINING)Īffects the output. Options for Usage 2 (Frequent subgraph mining): Options for Usage 1 (BBRC mining using dynamic upper bound pruning): File must be in Activity format (suffix not relevant). Plug-in library to use (/path/to/libbbrc.so or /path/to/liblast.so). p -p-value _p_value_ Set p-value for chi-square significance. u -no-upper-bound-pruning Switch off upper bound pruning (default: on). Upper bound pruning options (for performance benchmarking): b -no-bbr-classes Switch off mining for backbone refinement classes (default: on).

d -no-dynamic-ub Switch off dynamic adjustment of upper bound for backbone mining (default: on). s -refine-singles Switch on refinement of fragments with frequency 1 (default: off). Allowable values for _type_: 1 (paths) and 2 (trees) (default: 2). g -regression Switch on regression (default: off). o -no-output Switch off output (default: on). a -aromaticity Switch off aromatic ring perception when using smiles input format (default: on). f -minfreq _minfreq_ Set minimum frequency. The set of IDs in a gSpan or SMILES format file must be a subset of the set of activity IDs in the respective activity format file, i.e., not every Activity ID must be matched by a graph id, but vice versa. In case of numeric values, use the -g switch to enable regression (no automatic detection). Target class or numeric value is collectively referred to as 'activity'. Instead of classes, you can also provide numeric values. You can use maximally five different classes. The edge has label L.Īctivity file line format is defined by the id, endpoint description, and target class. 'e P Q L' means that there is an edge connecting the Pth vertex with the Qth vertex.

'v M L' means that the Mth vertex in this graph has label L, GSpan file block format (see also: ) is defined by: For instance, for SMILES formatted input there is a switch to enable/disable aromatic ring perception, which, in gSpan format, requires re-formatting the input.ġ COC1=CC=C(C=C1)C2=NC(=C(2)C3=CC=CC=C3)C4=CC=CC=C4 This is to support both general graph mining, but to also make life more convenient when mining molecular data. Graphs are allowed in SMILES and gSpan format. įor installation and documentation see INSTALL. This is Fminer (frontend application), available with libraries from.

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