Search Results for "align" - Page 6
Sort By:
Showing 171 open source projects for "align"
View related business solutions-
MongoDB Atlas runs apps anywhereMongoDB Atlas gives you the freedom to build and run modern applications anywhere—across AWS, Azure, and Google Cloud. With global availability in over 115 regions, Atlas lets you deploy close to your users, meet compliance needs, and scale with confidence across any geography.
-
Our Free Plans just got better! | Auth0You asked, we delivered! Auth0 is excited to expand our Free and Paid plans to include more options so you can focus on building, deploying, and scaling applications without having to worry about your security. Auth0 now, thank yourself later.
-
1
FineSplice
Enhanced splice junction detection and estimation from RNA-Seq data
FineSplice is a Python wrapper to TopHat2 geared towards a reliable identification of expressed exon junctions from RNA-Seq data, at enhanced detection precision with small loss in sensitivity. Following alignment with TopHat2 using known transcript annotations, FineSplice takes as input the resulting BAM file and outputs a confident set of expressed splice junctions with the corresponding read counts. Potential false positives arising from spurious alignments are filtered out via a... -
2
GLProbs
GLProbs: Aligning multiple sequences adaptively
GLProbs is a simple and effective approach to improve the accuracy of multiple sequence alignment. We use a natural measure to estimate the similarity of the input sequences, and based on this measure, we align the input sequences differently. To test the effectiveness of this approach, we have implemented a multiple sequence alignment tool called GLProbs and compared its performance with a dozen leading alignment tools on three benchmark alignment databases, and GLProbs’s alignments has the best scores in almost all testings. We have also evaluated the practicability of the alignments of GLProbs by applying the tool to three biological applications, namely phylogenetic trees construction, protein secondary structure prediction and the detection of high risk members for cervical cancer in the HPV-E6 family, and the results are very encouraging. -
3
blastplot
A simple and easy to use perl package to plot blast output results
...Read-based BLAST analysis of NGS data is a common procedure especially in the case of metagenomic samples. However, coverage is usually not enough to allow for de novo assembly. This type of read-based analysis often creates the question of how a set of reads that align to the same sequence is distributed. The same question applies to preparation of primers or probes for microarray experiments. We have created BLASTPLOT, a PERL module to quickly plot the BLAST results from short sequences (primers, probes, reads) against reference targets. BLASTPLOT is a simple to use PERL module that allows the generation of PNG graphs for all the reference sequences associated with a BLAST result set. ... -
4
A free computer-aided translation / computer-assisted translation (CAT) tool to align and converter bitext into TMX translation memory format to be used in other CAT tools by translators and other language professionals.
-
Ship Agents FasterGemini Enterprise Agent Platform lets you rapidly build, scale, govern and optimize production-ready agents grounded in your organization's data. The platform enables developers to build custom or pre-built agents for virtually any use case. New customers get $300 in free credits.
-
5
SOAPindel2
SOAPindel2 focusing on calling indels from the next-generation p
Requirements SOAPindel2 needs two input data sources: The reference sequence file used to align the reads. It must be in Fasta format. The files with read-alignments. SOAPindel2 accepts only Indexed BAM formats as input. Users can use the tools/soap2sam.cc to convert SOAP format to SAM format and use samtools convert SAM to indexed BAM. SOAPindel2 can guess the library insert sizes by itself. Sequencing platform:Theoretically, SOAPindel2 is designed for all paired-end sequencing data because it doesn’t consider any qualities for now. ... -
6
Qudaich
Performs local sequence alignment for NGS data
...Qudaich is flexible and its algorithmic structure imposes no restriction on the absolute limit of the acceptable read length, but the current version of qudaich allow read length <2000 bp. Qudaich can be used to align DNA, translated DNA and protein sequences. -
7
Hierachical_DNAcoder
An Hierachical Approach to Multi-Reference Genome compression
...We present a novel multi-reference based genome compression method with a hierachical structure. Our approach works for the de facto standard alignment format (i.e., BAM) compression that is the pressing need at present. We align new sequences to a reference sequence using SOAP3, a GPU-based aligning software, and summarize mapping properties and information for exact mapped reads. To increase the exact aligning rate, we also realign the approximately mapped and unmapped reads by changing the reference sequence or shortening the read length. Meanwhile, we further the study using “lossy” quality values through k-means clustering scheme and find its minute effect on downstream applications. ... -
8
iAstroDroid
Automated astrophotography on Android
iAstroDroid is a world first solution for controlling the autoguider, CCD, DSLR, and mount for astrophotography on Android devices. iAstroDroid run on a parallel OS (Chroot) on an Android device. A user can control all devices via a web browser on Android. Requirements and supported devices. 1. Autoguider: QHY5 or QHY6 2. CCD: QHY8L 3. DSLR: Canon or Nikon DSLR 4. USB serial adapter (FTDI232) for controlling a DSLR camera shutter and a serial shutter... -
9
futureopsis
futureopsis is a social business platform and collobaration apps
...Our products apply powerful technology that helps people connect and collaborate to get more work done and improve execution in critical business functions. Futureopsis solutions help companies align employees and make them more productive.They enable salespeople to sell more.They help marketers create successful campaigns . -
$300 Free Credits to Build on Google CloudStart your next project with $300 in free Google Cloud credit. Spin up VMs, run containers, query petabytes in BigQuery, or build agents with Gemini Enterprise Agent Platform. Once your credits are used, keep building with 20+ always-free tier products including Compute Engine, Cloud Storage, GKE, and Cloud Run functions. No commitment required—just sign up and start building.
-
10
tisa - Tab Indent Space Align
A program that will correct both indentation and alignment.
-
11
growlight
Storage management and system installation tool
Growlight facilitates management of all storage devices known to the Linux kernel, from hardware RAIDs to hybrid media to ramdisks to ZFS (indeed, Growlight was initially written to simplify ZFS on Linux). It understands the majority of partition and filesystem types, as well as both software and hardware RAID, LVM, and encrypted disks. -
12
NeedlemanWunsch
Fast global sequence alignment for the masses!
MOVED TO GITHUB: https://github.com/noporpoise/seq-align Global optimal sequence alignment using the Needleman-Wunsch algorithm. Aligns DNA, RNA, protein sequence and more! See our sister project local alignment using Smith-Waterman: http://sourceforge.net/projects/smithwaterman/ -
13
Ferox
Ferox - Sequence Alignment with Fuzzy K-mers
Ferox is a DNA sequence alignment application that uses fuzzy k-mers to quickly and accurately align sets of sequence reads against a reference genome. Ferox can also be used to align whole genomes. The seeding mechanism used by Ferox is highly configurable, allowing custom fuzzy seeds to be created declaratively in an XML configuration file. -
14
AlignMe
Alignment of membrane proteins
AlignMe is a C++ program to align distantly related membrane proteins by including several input parameters. Alignments based on substitution matrices, Position Specific Matrices (PSSMs), hydrophobicity scales and any kind of profiles (membrane predictions, secondary structure predictions etc.). -
15
GUI wrapper for escputil (command line utility to manage Epson printers): it allows to watch ink levels, clean print heads, print nozzle patterns, align printer heads, .... with a simple and friendly user interface.
-
16
CGAP-Align
A new time efficient read alignment tool built on the top of BWA
See Wiki page for details. -
17
ClovisGrid
Simple grid overlay that runs over SWTOR.
This program runs a simple grid that displays over SWTOR to allow you to more easily align your GUI with the new patch 1.2 interface editor. New with version 1.3: - Visibility-toggle hotkey (ctrl+shift+home) - Snap cursor to grid! (to toggle, hold ctrl+shift+tab) V 1.3.a - Fixed several problems occurring at certain resolutions. -
18
graphICs
graphICs is a converter transforming GDS II-data to Asymptote-code
...This code can be translated via Asymptote to PDF, PNG or other formats. The output can be specified to be printed on an A-format paper, portrait or landscape, top/right, center or bottom/left align. To use graphICs you need to download the JAR-file containing the program (no installation needed) and the MAP-file containing the color-information for the design (you can modify it or you create your own). To create graphic or PDF-files you need to download Asymptote from asymptote.sourceforge.net. Look at http://sourceforge.net/p/graphicsic/wiki/Usage/ for the Usage. ... -
19
SmithWaterman
Fast local sequence alignment for the masses!
MOVED TO GITHUB: https://github.com/noporpoise/seq-align An implementation of the Smith-Waterman local sequence alignment algorithm. See our sister project global alignment using Needleman-Wunsch: http://sourceforge.net/projects/needlemanwunsch/ -
20
This project has been moved to https://github.com/loomchild/maligna . All further development will be done there.
-
21
<img src="http://etudiant.univ-mlv.fr/~ofiguero/anaconda_logo_2.gif" align="right" /> A java based file navigator/manager to be used on both Linux and Windows OS
-
22
EGallery
A simple PHP image gallery with cache and no database.
...Features include: - Cached thumbnails to reduce page load times - Upload script to add image files from your web browser - Download all images as a .zip file - Clicking on an image thumbnail prompts users to save the original image file to their computer Credits: - Utilizes the jQuery Masonry plugin to align images: http://masonry.desandro.com/ - Upload script from Uploadify: http://www.uploadify.com/ - Thumbnail creation: http://code.google.com/p/timthumb/ -
23
JFinisher
JFinisher is software for alignment, editing and manipulation DNA seqs
JFinisher is software for alignment, editing and manipulation of biological sequences. It aims to assist in the finishing of genome assembly. Starting from a reference sequence, the program align contigs using Smith-Waterman local alignment algoritm with auxiliary methods, allowing management of the alignments generated. It has graphical interface for manipulation and visualization of the actions, uniting features that help in editing the sequences. It has internal projects manageable and ability to export results in the standard formats of the area. -
24
-
25
A GUI program to create the plasmid database forms for BGME lab. This program presents user with a data entry form for entering plasmid information and automatically converts DNA sequence to protein, aligns it, and creates text output file.
