Search Results for "sam" - Page 4
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Showing 155 open source projects for "sam"
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Transcriptome assembly ORA
Reference-based transcriptome reconstruction software
...It performs reconstruction starting from short reads obtained from RNA-seq. It is best suited to manage the transcriptomes of lower eukaryotes with a low number of introns per gene and it can be used also for procariotes. It needs a SAM file with the reads aligned on the reference genome and (optional) a gff file with the position of genes on the reference genome. It provides in output the positions of the transcripts identified, the transcripts names based on the genes present on the gff file anf the size of UTR regions. -
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LDS
LDS (Loop Diagnostic System) an Electronic Agen
LDS (Loop Diagnostic System) is an Electronic Agent written in VB Net including over 30 Applications in telecommunication field as: Line Test Diagnostic Application, Batch Diagnostic Tools, NGN Script Generator Tool, SS7 Trace Analysis Tool (MeGaCo, IAM, SAM, COT, CPG, SUS, UDT, ACM, ANM, REL, OPM, H248, RTP Trace Analysis), RDP (Remote Desktop) Client Application, GIS Tool, xDSL Tools & Loop Calculator Application, Auto Response Generator Tool, OS Emulators Tool, Router GUI Emulators Tool, ISP Services Tool, TMS (Troubleshooting Management System) Application, Unit Converter Tool, CLI Reverse Lookup Tool, Phonebook Tool, NT1 Commands Tool, Dynamic Guide Application etc -
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jChIP
Graphical environment for exploratory ChIPSeq data analysis
...It was created to build binding profiles between proteins and loci in the genome. In addition it computes statistics of the number of loci/positions containing specified amount of tags. jChIP is able to load data in several common formats (SAM, BAM, WIG, BED, Bowtie) and download loci definitions directly from the Ensembl database. http://www.biomedcentral.com/1756-0500/7/676 -
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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.
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Snort/Snort Sam
Snort/Snortsam by Tran Phuong Binh
Đồ án xây dựng hệ thống cảnh báo và ngăn chặn xâm nhập Trần Phương Bình Lớp C15QM15 MSV: 13204272 HUTECH -
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MethylExtract
High-Quality methylation maps and SNV calling from BS-Seq experiments
MethylExtract is a user friendly tool to generate i) high quality, whole genome methylation maps and ii) to detect sequence variation within the same sample preparation. The program is implemented into a single script and takes into account all major error sources: sequencing errors, bisulfite failure, clonal reads and single nucleotide variants. MethylExtract detects variation (SNVs – Single Nucleotide Variation) in a similar way than VarScan, a very sensitive method extensively used in... -
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MIF85Tracker
chiptune music tracker for Philips SAA-1099
Multiplatform GNU/GPL chiptune music tracker for Philips SAA-1099 soundchip with 6 channels, which was used in Sam Coupé micro-computer and also in sound interface MIF 85 for the Tesla PMD 85 (an 8-bit personal micro-computer produced in eighties of twentieth century in former Czechoslovakia). This is a very first music tracker for this soundchip on PC platform! -
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pyz80 is a z80 cross-assembler written entirely in Python. It accepts text files with the syntax of the Sam Coupe's popular COMET assembler, and outputs a disk image suitable for loading in SimCoupe or transferring to floppy disk for use with a real Sam.
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unixadmin
unixadmin is a system administration tool for Linux and OS X
unixadmin ============ unixadmin (Previously known as smc/syspert) Is a system administration tool which supports all versions of UNIX and Debian based versions and Red Hat versions of Linux, which supports major features such as user administration, disk administration and system administration This program sets to replace smit in IBM AIX and sam in HP-UX This program is the Linux equivlient of smit and SAM in AIX and HP-UX -
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mirUtils
miRNA alignment quantitation based on miRBase annotations
mirUtils provides quantitation of aligned microRNA sequences based on miRBase annotations. Starting from a miRBase-aligned BAM/SAM file, mirUtils reports counts and quality metrics for several taxonomy levels, including miRNA precursor hairpins, hairpin groups and families, mature miRNA loci, mature sequences, and genomic clusters, as well as per-hairpin-position alignment start and base coverage details. -
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Cybermon Info v1
This program helps you find any monster in Cybermon.
Developed independently by Sam Ward. -
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picard
A set of tools for working with high-throughput sequencing data
A set of tools (in Java) for working with next generation sequencing data in the SAM/BAM format. Note that development has moved to GitHub at https://github.com/broadinstitute/picard and support is available on the GATK forum at http://gatkforums.broadinstitute.org/categories/ask-the-team -
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Raspbmc kernel + usbtv support
A raspbmc kernel with support for the Fuschicai Easycap stick
A rebuilt raspbmc kernel with support for the Fushicai Easycap usb grabber (ID 1b71:3002). All credit goes to Sam Nazarko for his brilliant work. Sam, if you can see this, I would appreciate it if you included this module into the next release of Raspbmc :) Please refer to the wiki for installation instructions. All credit goes to Sam Nazarko for the brilliant raspbmc, and all the brilliant people who work on the raspbian and debian kernels - you guys rock! ... -
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Bycom
Bycom can do methylcytosine calling (5mC calling) from BS-seq.
Bycom can do methylcytosine calling from BS-seq (WGBS and RRBS), and either unmapped reads (FASTQ) or mapped reads (SAM/BAM) could be permitted for the input data. Certain SNPs (C>A/G) can also be selected in the output. 1. There's no softwares or methods identify methylcytosines considering the cell heterozygosis caused by multicellular sequencing. Bycom introduced it along with the sequencing errors and unconverson rate based on the Bayesian model. 2. -
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Configuration Grabber
configgrab
The configuration grabber (configgrab for short) fetches a list of devices and retreives the configuration from them. The tool is targeted towards routers and other remote devices that do not contain powerful utilities like rsync. -
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Object-oriented Simple DirectMedia Layer
High-level C++ framework to ease game development
OSDL: Object-oriented Simple DirectMedia Layer. OSDL is a high level open source (LGPL/GPL) portable multimedia library, built upon Sam Lantinga's SDL (http://www.libsdl.org). Its goal is to provide a high level C++ framework to ease game development. -
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rStreamer
Shoutcast radio streaming source software
A software that serves a similar purpose and gives similar options like SAM, i.e. playlist/queue admimistration, manipulation of the sounds while playing like mixing external sound sources (microphone) into the live stream, keep all song metadata in a relational DB to allow fast lookup by author/name, etc... with some nice extensions planned that I badly miss in SAM. -
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EJCCMTools
Generation of EJCCM files from SAM/BAM files
EJCCMTools is a Java software package for compression of SAM or BAM files, performing subsequent gene or transcript expression profiling and visualizing gene read coverage profiles. This novel compression scheme reduces file size by a factor of 214 compared to BAM files while keeping the full ability to analyze and visualize gene and isoform expression levels. As a result of the compression EJCCM files are generated. -
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SOAPindel2
SOAPindel2 focusing on calling indels from the next-generation p
...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. So it works for both Ilumina GA data and 454 data, but we’ve only tested it on Ilumina GA data. -
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Sam Proxy
Created for student use only
This is SamProxy Version Created For learning use only I am not responsible for any copyright actions on me. Please click below link for donating me, it wont charge anything but just a click http://linkshrink.net/7BkEMo You will get kucch more software from me on same site as return else just share this software with someone else Thank you, cause i m nothing without you -
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Self Assessment Manikin Hardware Device
Hardware SAM Device
Our work with implementing the Self Assessment Manikin (SAM) for use in a PPR environment. -Hardware source -Firmware -PC software This is a (published) hardware implementation (Creemers & Hingston, 2010) of the SAM scale that allows a person to make a “self report” of their emotional state. -
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Multi-Pipeline Gene Expression Analysis
Helps users to determine the optimal gene expression analysis pipeline
...Background Correction (none, mas5, rma, DFCM, RMA-mean, RMA-75) 2. Normalization (none, constant, contrasts, quantiles, invariant set, loess) 3. Summarization (mas5, rma, farms, DFW) 4. Gene Selection (SAM, ANOVA) Then executes K-means clustering on the significant genes, and evaluates the pipelines using the cumulative distribution funciton of the GO term co-clustering p-values. From this, the optimal microarray data workflow is chosen. Input files are CEL files along with a CLM file, which is a tab delimited text file containing one scan, sample and class per line. -
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This has now moved to GitHub! https://github.com/sam-truscott/wumpusopenal Output Plug-in for Winamp 5 that utilises OpenAL. Written primarily for Windows Vista and Windows 7 users to get Hardware Acceleration support.
