treematcher | Search flexible patterns within tree structures | Dataset library

 by   etetoolkit Python Version: Current License: No License

kandi X-RAY | treematcher Summary

kandi X-RAY | treematcher Summary

treematcher is a Python library typically used in Artificial Intelligence, Dataset applications. treematcher has no bugs, it has no vulnerabilities and it has low support. However treematcher build file is not available. You can download it from GitHub.

In mathematics, a standard way of representing graphical trees with edge lengths is the Newick format. The TreeMatcher module extends the Newick format to define a tree pattern and includes rules and filters with a Python-based vocabulary. These patterns are then searched for using a tree traversal algorithm. A pattern can be written by accessing the attributes and functions available to an ETE Tree (see Tree and PhyloTree classes), using Python code directly, or through custom functions and syntax.

            kandi-support Support

              treematcher has a low active ecosystem.
              It has 7 star(s) with 11 fork(s). There are 7 watchers for this library.
              It had no major release in the last 6 months.
              There are 3 open issues and 25 have been closed. On average issues are closed in 53 days. There are no pull requests.
              It has a neutral sentiment in the developer community.
              The latest version of treematcher is current.

            kandi-Quality Quality

              treematcher has no bugs reported.

            kandi-Security Security

              treematcher has no vulnerabilities reported, and its dependent libraries have no vulnerabilities reported.

            kandi-License License

              treematcher does not have a standard license declared.
              Check the repository for any license declaration and review the terms closely.
              Without a license, all rights are reserved, and you cannot use the library in your applications.

            kandi-Reuse Reuse

              treematcher releases are not available. You will need to build from source code and install.
              treematcher has no build file. You will be need to create the build yourself to build the component from source.
              Installation instructions are not available. Examples and code snippets are available.

            Top functions reviewed by kandi - BETA

            kandi has reviewed treematcher and discovered the below as its top functions. This is intended to give you an instant insight into treematcher implemented functionality, and help decide if they suit your requirements.
            • Search for matching patterns
            • Returns True if children match pattern
            • Find matching patterns
            • Checks if the given target node is a local match
            • Split pattern into partitionings
            • Generator for pattern tree
            • Compute match matrix
            • Find matches of t
            • Return a constraint for this node
            • Parse the metacharacters
            • Populate the argument parser
            Get all kandi verified functions for this library.

            treematcher Key Features

            No Key Features are available at this moment for treematcher.

            treematcher Examples and Code Snippets

            No Code Snippets are available at this moment for treematcher.

            Community Discussions


            Replacing dataframe value given multiple condition from another dataframe with R
            Asked 2022-Apr-14 at 16:16

            I have two dataframes one with the dates (converted in months) of multiple survey replicates for a given grid cell and the other one with snow data for each month for the same grid cell, they have a matching ID column to identify the cells. What I would like to do is to replace in the first dataframe, the one with months of survey replicates, the month value with the snow value for that month considering the grid cell ID. Thank you



            Answered 2022-Apr-14 at 14:50
            df3 <- df1
            df3[!] <- df2[!]
            #   CellID sampl1 sampl2 sampl3
            # 1      1    0.1    0.4    0.6
            # 2      2    0.1    0.5    0.7
            # 3      3    0.1    0.4    0.8
            # 4      4    0.1      
            # 5      5         
            # 6      6         



            Does Hub support integrations for MinIO, AWS, and GCP? If so, how does it work?
            Asked 2022-Mar-19 at 16:28

            I was taking a look at Hub—the dataset format for AI—and noticed that hub integrates with GCP and AWS. I was wondering if it also supported integrations with MinIO.

            I know that Hub allows you to directly stream datasets from cloud storage to ML workflows but I’m not sure which ML workflows it integrates with.

            I would like to use MinIO over S3 since my team has a self-hosted MinIO instance (aka it's free).



            Answered 2022-Mar-19 at 16:28

            Hub allows you to load data from anywhere. Hub works locally, on Google Cloud, MinIO, AWS as well as Activeloop storage (no servers needed!). So, it allows you to load data and directly stream datasets from cloud storage to ML workflows.

            You can find more information about storage authentication in the Hub docs.

            Then, Hub allows you to stream data to PyTorch or TensorFlow with simple dataset integrations as if the data were local since you can connect Hub datasets to ML frameworks.



            Custom Sampler correct use in Pytorch
            Asked 2022-Mar-17 at 19:22

            I have a map-stype dataset, which is used for instance segmentation tasks. The dataset is very imbalanced, in the sense that some images have only 10 objects while others have up to 1200.

            How can I limit the number of objects per batch?

            A minimal reproducible example is:



            Answered 2022-Mar-17 at 19:22

            If what you are trying to solve really is:



            C++ what is the best sorting container and approach for large datasets (millions of lines)
            Asked 2022-Mar-08 at 11:24

            I'm tackling a exercise which is supposed to exactly benchmark the time complexity of such code.

            The data I'm handling is made up of pairs of strings like this hbFvMF,PZLmRb, each string is present two times in the dataset, once on position 1 and once on position 2 . so the first string would point to zvEcqe,hbFvMF for example and the list goes on....

            example dataset of 50k pairs

            I've been able to produce code which doesn't have much problem sorting these datasets up to 50k pairs, where it takes about 4-5 minutes. 10k gets sorted in a matter of seconds.

            The problem is that my code is supposed to handle datasets of up to 5 million pairs. So I'm trying to see what more I can do. I will post my two best attempts, initial one with vectors, which I thought I could upgrade by replacing vector with unsorted_map because of the better time complexity when searching, but to my surprise, there was almost no difference between the two containers when I tested it. I'm not sure if my approach to the problem or the containers I'm choosing are causing the steep sorting times...

            Attempt with vectors:



            Answered 2022-Feb-22 at 07:13

            You can use a trie data structure, here's a paper that explains an algorithm to do that:

            But you have to implement the trie from scratch because as far as I know there is no default trie implementation in c++.



            How to create a dataset for tensorflow from a txt file containing paths and labels?
            Asked 2022-Feb-09 at 08:09

            I'm trying to load the DomainNet dataset into a tensorflow dataset. Each of the domains contain two .txt files for the training and test data respectively, which is structured as follows:



            Answered 2022-Feb-09 at 08:09

            You can use to load and process multiple txt files at a time:



            Converting 0-1 values in dataset with the name of the column if the value of the cell is 1
            Asked 2022-Feb-02 at 07:02

            I have a csv dataset with the values 0-1 for the features of the elements. I want to iterate each cell and replace the values 1 with the name of its column. There are more than 500 thousand rows and 200 columns and, because the table is exported from another annotation tool which I update often, I want to find a way in Python to do it automatically. This is not the table, but a sample test which I was using while trying to write a code I tried some, but without success. I would really appreciate it if you can share your knowledge with me. It will be a huge help. The final result I want to have is of the type: (abonojnë, token_pos_verb). If you know any method that I can do this in Excel without the help of Python, it would be even better. Thank you, Brikena



            Answered 2022-Jan-31 at 10:08

            Using pandas, this is quite easy:



            How can i get person class and segmentation from MSCOCO dataset?
            Asked 2022-Jan-06 at 05:04

            I want to download only person class and binary segmentation from COCO dataset. How can I do it?



            Answered 2022-Jan-06 at 05:04


            R - If column contains a string from vector, append flag into another column
            Asked 2021-Dec-16 at 23:33
            My Data

            I have a vector of words, like the below. This is an oversimplification, my real vector is over 600 words:



            Answered 2021-Dec-16 at 23:33

            Update: If a list is preferred: Using str_extract_all:



            How to divide a large image dataset into groups of pictures and save them inside subfolders using python?
            Asked 2021-Dec-08 at 15:13

            I have an image dataset that looks like this: Dataset

            The timestep of each image is 15 minutes (as you can see, the timestamp is in the filename).

            Now I would like to group those images in 3hrs long sequences and save those sequences inside subfolders that would contain respectively 12 images(=3hrs). The result would ideally look like this: Sequences

            I have tried using os.walk and loop inside the folder where the image dataset is saved, then I created a dataframe using pandas because I thought I could handle the files more easily but I think I am totally off target here.



            Answered 2021-Dec-08 at 15:10

            The timestep of each image is 15 minutes (as you can see, the timestamp is in the filename).

            Now I would like to group those images in 3hrs long sequences and save those sequences inside subfolders that would contain respectively 12 images(=3hrs)

            I suggest exploiting datetime built-in libary to get desired result, for each file you have

            1. get substring which is holding timestamp
            2. parse it into datetime.datetime instance using datetime.datetime.strptime
            3. convert said instance into seconds since epoch using .timestamp method
            4. compute number of seconds integer division (//) 10800 (number of seconds inside 3hr)
            5. convert value you got into str and use it as target subfolder name



            Proper way of cleaning csv file
            Asked 2021-Nov-15 at 22:58

            I've got a huge CSV file, which looks like this:



            Answered 2021-Nov-15 at 21:33

            You can use a regular expression for this:


            Community Discussions, Code Snippets contain sources that include Stack Exchange Network


            No vulnerabilities reported

            Install treematcher

            You can download it from GitHub.
            You can use treematcher like any standard Python library. You will need to make sure that you have a development environment consisting of a Python distribution including header files, a compiler, pip, and git installed. Make sure that your pip, setuptools, and wheel are up to date. When using pip it is generally recommended to install packages in a virtual environment to avoid changes to the system.


            For any new features, suggestions and bugs create an issue on GitHub. If you have any questions check and ask questions on community page Stack Overflow .
            Find more information at:

            Find, review, and download reusable Libraries, Code Snippets, Cloud APIs from over 650 million Knowledge Items

            Find more libraries
          • HTTPS


          • CLI

            gh repo clone etetoolkit/treematcher

          • sshUrl


          • Stay Updated

            Subscribe to our newsletter for trending solutions and developer bootcamps

            Agree to Sign up and Terms & Conditions

            Share this Page

            share link

            Explore Related Topics

            Consider Popular Dataset Libraries


            by huggingface


            by emirpasic


            by covid19india


            by doccano

            Try Top Libraries by etetoolkit


            by etetoolkitPython


            by etetoolkitHTML


            by etetoolkitPython


            by etetoolkitPython


            by etetoolkitC