Sra toolkit

Author: J | 2025-04-24

Welcome to the sra-tools wiki! For a full history of SRA Toolkit's changes, please refer to CHANGES.md. 01. Downloading SRA Toolkit. 02. Installing SRA Toolkit. 03. Quick Toolkit The NCBI SRA toolkit can work directly on encrypted SRA data without decryption. Decrypted SRA data is in a binary format that is not human readable and can only be processed by the SRA toolkit anyway. You need NCBI SRA toolkit to work on SRA data. The SRA toolkit is a collection of utilities that can dump, extract, and convert SRA data to

SRA Toolkit: the SRA database at your fingertips

HomeEasy GuidesGenomicsGenomic ToolkitsInstall SRA toolkit --> SRA toolkit contains important tools to manipulate SRA (Short Read Archive) file.The objective of this article is to show you, how to install SRA toolkit on Ubuntu/Linux system.Installation1. Download the last version for your computer operating system from hereUse the following command on Linux to download the file sratoolkit.2.4.1-ubuntu64.tar.gz:Code BASH : #Download the file for ubuntu systemwget Unzip the archivetar xzvf sratoolkit.2.4.1-ubuntu64.tar.gz 2. Modify your .bashrc file so that when you type "fastq-dump" , for example, it calls the program:Code BASH :export PATH=$PATH:/directory/sratoolkit.2.4.1-ubuntu64/bin Directory is equal to the directory that you have installed sratoolkit in. Example:Code BASH :export PATH=$PATH:/home/kassambara/Documents/sequencing/tools/sratoolkit.2.4.1-ubuntu64/bin Enjoyed this article? I’d be very grateful if you’d help it spread by emailing it to a friend, or sharing it on Twitter, Facebook or Linked In. Show me some love with the like buttons below... Thank you and please don't forget to share and comment below!!Avez vous aimé cet article? Je vous serais très reconnaissant si vous aidiez à sa diffusion en l'envoyant par courriel à un ami ou en le partageant sur Twitter, Facebook ou Linked In. Montrez-moi un peu d'amour avec les like ci-dessous ... Merci et n'oubliez pas, s'il vous plaît, de partager et de commenter ci-dessous! --> Recommended for You! Get involved : Click to follow us on Facebook : Comment this article by clicking on "Discussion" button (top-right position of this page) David Martinez & Chef Michelle BernsteinMiami, FL – December 11, 2024 – Step inside James Beard Award-winning chef Michelle Bernstein and husband/partner David Martinez’s Sra. Martinez in Coral Gables.The highly anticipated resurrection of the award-winning restaurant opened by the hospitality power duo in the Miami Design District in 2008, Sra. Martinez features a menu rooted in Spain with influences and flavors from the partners’ travels.“Sra. Martinez is the ‘one that got away’ — it’s a concept we love and miss and most importantly are asked about constantly for years since it closed its doors much too early,” share the dynamic duo, Michelle and David. “It’s one of our first ventures together and now that we are older and a bit wiser, we have grown quite a bit as has Sra. Martinez — its design, feel, menu and trajectory have all evolved.”The new Sra. Martinez, open at the site of the former Open Stage Club (2325 Galiano Street), combines high-caliber dining, an elevated cocktail program, a vibrant bar scene, and live music for an all-around memorable experience that celebrates authenticity and community.WRE: What inspired you to open SRA Martinez in Miami, and how does the concept reflect your culinary journey?David Martinez: Sra. Martinez is “the one that got away,” a concept we loved and missed, and one we’ve been asked about constantly for years since it closed its doors far too soon. It was one of our first ventures together, and now, with time, we’ve grown older, a bit wiser, and more experienced, just as Sra. Martinez has evolved in its design, ambiance, menu, and trajectory.David Martinez & Chef Michelle BernsteinIt was one of our first ventures together, and now, with time, we’ve grown older, a bit wiser, and more experienced, just as Sra. Martinez has evolved in its design, ambiance, menu, and trajectory.David MartinezWRE: Can you walk us through the design and aesthetic of the restaurant’s space?DM: It has a slight reminiscence of the first iteration, yet it’s much more mature, with softer colors, freshly poured terrazzo floors, and plenty of walnut fixtures, tables, and doors. The bar has its

SRA toolkit (NCBI) - sra to fasta - biostars

VAEW_A_39f1_B_39d_24g1.SSA.bin 2. Copy the VAEW_A_39f1_B_39d_24g1.SSA.bin firmware to a designated location; for example, router flash or a TFTP server. 3. Configure the router to load the new firmware from a designated location. Router# configure terminal Enter configuration commands, one per line. End with CNTL/Z. Router(config)# controller vdsl 0 Router(config-controller)# firmware filename ? archive: Download fw file name cns: Download fw file name flash: Download fw file name ftp: Download fw file name http: Download fw file name https: Download fw file name null: Download fw file name nvram: Download fw file name rcp: Download fw file name scp: Download fw file name system: Download fw file name tar: Download fw file name tftp: Download fw file name tmpsys: Download fw file name xmodem: Download fw file name ymodem: Download fw file name Router(config-controller)# firmware filename flash: Note: Controller VDSL 0 should not be turned off. 4. Enter the copy running-config startup-config command to save your configuration. 5. Enter the reload command to restart the router. Supported Features This section contains information about various features supported by firmware release A2pv6F039t: ■G.993.2 (VDSL2) protocol. ■PTM and ATM mode ■Annex A and Annex B band plans ■Profiles supported: 8a/b/c/d, 12a/b, 17a and 30a (BCM6306 required) ■US0 ■Diagnostics mode/DELT ■Bitswaps, SRA and SOS/ROC ■FEXT Equalized UPBO ■Dying Gasp ■INM ■PhyR and G.INP (Framing Type 1) ■SRA/SoS+G.INP ■G.vector and G.vector friendly mode (G.993.2 Annex Y) ■Virtual Noise ■Alternate Electrical Length Measurement ■ADSL protocols ■G.992.5 (ADSL2+), G.992.3 (ADSL2), G.992.2 (G.LITE), G.992.1 (G.DMT), ANSI T1.413 ■ATM/PTM mode ■Annex A/L/M ■L2 power management ■Diagnostics mode/DELT ■Bitswaps and SRA ■INM ■PhyR and G.INP (Framing Type 1) ■SRA+G.INP ■Virtual Noise New and Changed Information This section contains changes introduced with firmware release A2pv6F039t. ■Improve G.992.1 Showtime Stability against ALU 7350 [FW-8502] ■Provide driver bit control to use AELEM of 0 in. Welcome to the sra-tools wiki! For a full history of SRA Toolkit's changes, please refer to CHANGES.md. 01. Downloading SRA Toolkit. 02. Installing SRA Toolkit. 03. Quick Toolkit

SRA toolkit (NCBI) - sra to fasta - Biostar: S

In Part 1 of this series, Schedule Analysis, Part 1: What Is It?, provided a brief introduction to schedule analysis. This article discusses why a schedule analysis should be performed. But first, a point of clarification. Schedule analysis and Schedule Risk Analysis (SRA) are two different things. Schedule analysis and Schedule Risk Analysis (SRA) are two different things. Schedule analysis looks at schedule health metrics, counts and amounts, data about the schedule data and draws conclusions about the overall schedule quality. Just like a doctor checks your vital signs to decide about your health. An SRA uses statistics to determine the probability of meeting a specified event completion date. It does not look at the schedule analysis, but the schedule analysis will help determine if the results of the SRA are valid.In general, a project manager wants situational awareness. They want to know where they are, where they are going, what they still need to do, what could go wrong, and when will I be done? The schedule provides project situational awareness and the questions are best viewed as the five immutable principles of project success courtesy of Glenn Alleman.The Five Immutable Principles of Project Success:What does "done" look like?How do we get to done?Do we have everything we need for the plan to produce done?What could possibly go wrong?How are we going to measure progress to our plan other than the passage of time and consumption of money?What does done look like?Done is defined by the project scope or Work Breakdown Structure (WBS). Part of the schedule analysis is to determine if all the project scope and only the project scope is in the schedule. Whether project scope is defined by a standardized WBS or not, the scope must be verified manually. Tools can determine that all activities have a WBS assignment, but deciding if it is the correct piece of done is a manual process.There are a variety of ways to define done within the schedule. The preferred way is to allocate scope to WBS elements. Deliverables and other contractual requirements or specifications can also be assigned to Software Free Download | Soft32.com Home Windows Mac Mobile Blog You can skip this in seconds Click here to continue Home Windows Video Video Editors Total Recorder Pro & AGC & SRA & Video Add-ons Free Download Secure Total Recorder Pro & AGC & SRA & Video Add-ons Download Options Download Now! Total Recorder Pro & AGC & SRA & Video Add-ons 6.1 (External server) Popular Downloads Kundli 4.5 Understand your life events through astrology. Macromedia Flash 8 8.0 Macromedia Flash 8 Professional. Grand Auto Adventure 1.0 3D racing sandbox game. Grand Theft Auto: Vice City 1.0 Welcome to Vice City. Welcome to the 1980s.... Cool Edit Pro 2.1.3097.0 Advanced multi track sound editing program. Hill Climb Racing 1.0 The Ultimate Hill Climb Racing adventure Cheat Engine 6.8.1 Cheating for experts! Tom VPN 2.2.8 TomVPN-No Sign up Free used Zuma Deluxe 1.0 Survive the ancient temples of Zuma. Minecraft 1.10.2 Build anything you can imagine. Netcut 2.1.4 Netcut Horizon 2.9.0.0 Innovative Xbox 360 modding tool. Ulead Video Studio Plus 11 Video editing software for Windows. Grand Theft Auto IV Patch... 1.0.1.0 Grand Theft Auto IV Patch 1.0.1.0. C-Free 5.0 An excellent IDE for C/C++ language. CDMA2000 1X Wireless Network... 1.0.0.26 Age of Empires 1.0 Civilization-building strategy game. Vector on PC 1.0 Vector, a side scrolling parkour inspired Driver Booster 9.0.1.104 Update outdated drivers safely and rapidly. Operation Ubersoldat 1.0 WW2 first person shooter. All popular downloads Home Submit Software Contact Us Advertise with Us All Software Sitemap Jobs Blog Facebook Twitter RSS Soft32© 2003 - 2025 ITNT. All rights reserved. Soft32 is also available in Deutsch, Español, Français, Português, Italiano. Legal Information Privacy Policy Terms of Service Copyright EULA DMCA Uninstall

download sra files with sra-toolkit: switch to HTTPS

15.5(3) Modem Version Far: 0xa450 Modem Status: TC Sync (Showtime!) DSL Config Mode: VDSL2 Trained Mode: G.993.2 (VDSL2) Profile 17a TC Mode: PTM Selftest Result: 0x00 DELT configuration: disabled DELT state: not running Full inits: 1 Failed full inits: 0 Short inits: 0 Failed short inits: 12 Modem FW Version: 4.12L.08 Modem PHY Version: A2pv6F039t.d24m Trellis: ON ON SRA: disabled disabled SRA count: 0 0 Bit swap: enabled enabled Bit swap count: 8 1 Line Attenuation: 0.3 dB 0.0 dB Signal Attenuation: 0.0 dB 0.0 dB Noise Margin: 18.8 dB 6.8 dB Attainable Rate: 150631 kbits/s 60284 kbits/s Actual Power: 14.5 dBm - 4.3 dBm Per Band Status: D1 D2 D3 U0 U1 U2 U3 Line Attenuation(dB): 0.0 0.4 0.6 N/A 0.0 0.0 N/A Signal Attenuation(dB): 0.0 0.4 0.6 N/A 0.0 0.0 N/A Noise Margin(dB): 19.2 18.6 18.6 N/A 7.1 6.6 N/A Total FECC: 0 0 Total ES: 0 0 Total SES: 0 0 Total LOSS: 0 0 Total UAS: 1292 1292 Total LPRS: 0 0 Total LOFS: 0 0 Total LOLS: 0 0 DS Channel1 DS Channel0 US Channel1 US Channel0 Speed (kbps): 0 100014 0 60015 SRA Previous Speed: 0 0 0 0 Previous Speed: 0 0 0 0 Reed-Solomon EC: 0 0 0 0 CRC Errors: 0 0 0 0 Header Errors: 0 0 0 0 Interleave (ms): 0.00 7.00 0.00 0.00 Actual INP: 0.00 1.01 0.00 0.00 Training Log : Stopped Training Log Filename : flash:vdsllog.bin Upgrading to a New Firmware Release Perform the following steps to upgrade to a new firmware release: 1. Download the new firmware from Cisco.com Software Center at Choose Products -> Routers -> Branch Routers -> Cisco 800 Series Routers -> Cisco 866VAE-W Integrated Services Router (or Cisco 867 VAE-W Integrated Services Router) -> Very High Bitrate DSL (VDSL) Firmware >

Downloading SRA data using the SRA Toolkit - biostars.org

Michael Campbell August 22, 2024 11:09 Updated --> Follow--> Question: How do I prepare Sequence Read Archive (SRA) data from NCBI for Cell Ranger?Answer: One of the beauties of open source data in the sequencing age is the ability to reanalyze data generated by other researchers. The primary source of these publicly available datasets in the United States is the Sequence Read Archive (SRA) maintained by NCBI. Using these data in Cell Ranger requires some pre-processing. Before downloading SRA data, first identify the platform and version of the chemistry used to generate the data. The following fix has been tested on Chromium v2 and v3 chemistry.First, use the NCBI fastq-dump utility with the --split-files argument to retrieve the FASTQ files. The command may look like this:fastq-dump --split-files --gzip SRR6334436The output would be two FASTQ files:SRR6334436_1.fastq.gzSRR6334436_2.fastq.gzThe number of FASTQ files we retrieved is consistent with what is reported in the metadata of SRR6334436: This run has 2 reads per spot. Based on the read length, we can infer that SRR6334436_1.fastq is Read 1 and SRR6334436_2.fastq is Read 2 (see Sequencing Recommendation for 3' Gene Expression Assays)Sometimes, the authors may upload 3 or 4 reads for a sample by including index reads. For example, if we try to retrieve FASTQ files from SRR9291388:fastq-dump --split-files --gzip SRR9291388The output would be three FASTQ files:SRR9291388_1.fastq.gzSRR9291388_2.fastq.gzSRR9291388_3.fastq.gzThe number of FASTQ files we retrieved is consistent with what is reported in the metadata of SRR9291388: This run has 3 reads per spot. Based on the read length and the attributes listed in the metadata, we know that:SRR9291388_1.fastq is Read 1SRR9291388_2.fastq is Read 2SRR9291388_3.fastq is Index 1Cell Ranger requires FASTQ file names to follow the bcl2fastq file naming convention.[Sample Name]_S1_L00[Lane Number]_[Read Type]_001.fastq.gzWhere Read Type is one of:I1: Sample index read (optional)I2: Sample index read (optional)R1: Read 1 (required)R2: Read 2 (required)NOTE: Cell Ranger v4.0 and later will accept file names without lane number [Lane Number].Therefore, for Cell Ranger:incompatible file name: SRR9291388_1.fastq.gzcompatible file name: SRR9291388_S1_L001_R1_001.fastq.gzcompatible file name: SRR9291388_S1_R1_001.fastq.gz (for Cell Ranger v4.0 and later)Changing the file names will allow Cell Ranger (version >=2.1.1) to accept these data as input. Note. Welcome to the sra-tools wiki! For a full history of SRA Toolkit's changes, please refer to CHANGES.md. 01. Downloading SRA Toolkit. 02. Installing SRA Toolkit. 03. Quick Toolkit

Downloading SRA data with the SRA toolkit, FastQC and import

I through R ip authentication key-chain eigrp To enable authentication of Enhanced Interior Gateway Routing Protocol (EIGRP) packets, use the ip authentication key-chain eigrp command in interface configuration mode. To disable such authentication, use the no form of this command. ip authentication key-chain eigrp as-number key-chain no ip authentication key-chain eigrp as-number key-chain Syntax Description as-number Autonomous system number to which the authentication applies. key-chain Name of the authentication key chain. Command Default No authentication is provided for EIGRP packets. Command Modes Interface configuration (config-if) Virtual network interface (config-if-vnet) Command History Release Modification 11.2F This command was introduced. 12.2(33)SRA This command was integrated into Cisco IOS Release 12.2(33)SRA. 12.2SX This command is supported in the Cisco IOS Release 12.2SX train. Support in a specific 12.2SX release of this train depends on your feature set, platform, and platform hardware. Cisco IOS XE Release 2.1 This command was integrated into Cisco IOS XE Release 2.1. 12.2(33)XNE This command was integrated into Cisco IOS Release 12.2(33)XNE. Cisco IOS XE Release 3.2S This command was modified. Support was added for this command in virtual network interface configuration mode. Examples The following example applies authentication to autonomous system 2 and identifies a key chain named SPORTS: ip authentication key-chain eigrp 2 SPORTS Related Commands Command Description accept-lifetime Sets the time period during which the authentication key on a key chain is received as valid. ip authentication mode eigrp Specifies the type of authentication used in EIGRP packets. key Identifies an authentication key on a key