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nanoporeã‚’ã¯ã˜ã‚る人ã¸ã®ã‚ªã‚¹ã‚¹ãƒ¡é …ç›®ã«ã¤ã„ã¦
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Clouderaã€ãƒ–ãƒãƒ¼ãƒ‰ç ”究所ã¨æ¬¡ä¸–代ゲノム解æžãƒ„ールã‚ットを開発
Clouderaã€ãƒ–ãƒãƒ¼ãƒ‰ç ”究所ã¨æ¬¡ä¸–代ゲノム解æžãƒ„ールã‚ットを開発Apache Sparkを使用ã—Cloudera Enterprise上ã§ãƒã‚¤ã‚ªã‚¤ãƒ³ãƒ•ã‚©ãƒžãƒ†ã‚£ã‚¯ã‚¹ï¼ˆç”Ÿç‰©æƒ…å ±å¦ï¼‰ã® スタンダードã¨ã—ã¦ã€ã‚²ãƒŽãƒ ç ”ç©¶ã®ä¿ƒé€²ã«å‘ã‘デザインã•ã‚ŒãŸGATK4を開発 2016å¹´4月6æ—¥ 米国カリフォルニア州パãƒã‚¢ãƒ«ãƒˆç™º ï¼ Apache Hadoopã¨æœ€æ–°ã®ã‚ªãƒ¼ãƒ—ンソーステクノãƒã‚¸ãƒ¼ã‚’ベースã«ã€æœ€ã‚‚高速ã§æœ€ã‚‚使ã„ã‚„ã™ãã€ã‚»ã‚ュアãªãƒ‡ãƒ¼ã‚¿ç®¡ç†ã¨åˆ†æžã‚’実ç¾ã™ã‚‹ãƒ—ラットフォームをæä¾›ã™ã‚‹Clouderaã¯ã€æœ¬æ—¥ã€ç”Ÿç‰©åŒ»å¦ã¨ã‚²ãƒŽãƒ ç ”ç©¶ã®ä¸–界最先端をã„ãマサãƒãƒ¥ãƒ¼ã‚»ãƒƒãƒ„工科大ãŠã‚ˆã³ãƒãƒ¼ãƒãƒ¼ãƒ‰å¤§ã®ç ”究施è¨ã®ãƒ–ãƒãƒ¼ãƒ‰ç ”究所ã¨ã®å”æ¥ã‚’発表ã—ã¾ã—ãŸã€‚ï¼’ã¤ã®çµ„ç¹”ã¯ã€æ¬¡ä¸–代ã®ã‚²ãƒŽãƒ 解æžãƒ„ールã‚ット“GATK4"ã®é–‹ç™ºã‚’推進ã™ã‚‹ãŸã‚ã«ã€ä»Šå¹´åº¦å…±åŒã§ä½œæ¥ã‚’è¡Œã„ã¾ã™ã€‚ Cloudera Enterpriseã¯ã€è‡¨åºŠåŒ»ã‚„ç ”ç©¶è€…ãŠ
ChIP-Atlas
What's new New publication on the NAR web server issue! https://doi.org/10.1093/nar/gkae358 (2024/05/16) Added Annotation tracks to Peak Browser, together with UI improvement (2023/10/25) Launched Diff Analysis tool enabling to detect differential peaks or differentially methylated regions (2023/10/25) New publication on the NAR web server issue! https://doi.org/10.1093/nar/gkac199 (2022/03/24) Ad
dbSTAR
a reference DataBase of human STructural vARiation from sequencing data For the last several years, High Throughput Sequencing (HTS) has been widely used to highlight the molecular causes for inherited diseases. Among those causes Structural Variations (SVs) play a key role in human diseases. Different types of SVs exist including deletions, duplications, insertions, inversions and translocations.
Three ways to trim adaptor/primer sequences for paired-end reads
My learning notes for R, Unix, Perl, statistics, tools/resources, biology etc. everything about Bioinformatics 1. Understanding the adaptors (skip this part if you're familiar with the Illumina adaptor) Before trimming anything from the reads, let's get clear what the reads content is. Taking Trufseq reads (from Illumina HiSeq 2000) as example, here is the read file (fastq) looks like: $ cat r1.fq
Variant Classification: A comparison of Annovar, SNPeff and VEP
The State of Variant Annotation: A Comparison of AnnoVar, snpEff and VEP Up until a few weeks ago, I thought variant classification was basically a solved problem. I mean, how hard can it be? We look at variants all the time and say things like, “Well that one is probably not too detrimental since it’s a 3 base insertion, but this frameshift is worth looking into.†What we fail to recognize is jus
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NGSç¾å ´ã®ä¼š ç¬¬å››å›žç ”ç©¶ä¼š 全員å‚åŠ åž‹ã‚»ãƒƒã‚·ãƒ§ãƒ³ä¼ç”» ãŠèŠ±è¦‹ãƒ¡ã‚¿ã‚²ãƒŽãƒ プãƒã‚¸ã‚§ã‚¯ãƒˆ 日本全国ソメイヨシノã®èŠ±ã®ç´°èŒå¢ã‚’ã€ã¿ã‚“ãªã§é›†ã‚ã¦ã€ã‚·ãƒ¼ã‚±ãƒ³ã‚¹ã—ã¦ã€ã¿ã‚“ãªã§è§£æžã—ã¾ã™ã€‚ サンプリングã‹ã‚‰è§£æžãƒ»æˆæžœç™ºè¡¨ã¾ã§ã€ã‚ãªãŸã‚‚å‚åŠ ã—ã¾ã›ã‚“ã‹ï¼Ÿ 全国å„地ã‹ã‚‰ã€ã‚µãƒ³ãƒ—ルã®é€ä»˜ã‚’ã„ãŸã ãã‚ã‚ŠãŒã¨ã†ã”ã–ã„ã¾ã—ãŸã€‚ ãŸã ã„ã¾ã‚·ãƒ¼ã‚±ãƒ³ã‚¹ã‚’è¡Œã£ã¦ã„ã¾ã™ã€‚データã®é…布ã¾ã§ã—ã°ã‚‰ããŠå¾…ã¡ãã ã•ã„。 ã‚µãƒ³ãƒ—ãƒ«æƒ…å ±ã®ç™»éŒ²ã«ã¤ã„ã¦ã¯ã“ã¡ã‚‰
NGSãƒãƒ³ã‚ºã‚ªãƒ³è¬›ç¿’会 - NBDC
NGSãƒãƒ³ã‚ºã‚ªãƒ³è¬›ç¿’会 NGS（次世代シーケンサー）ã‹ã‚‰ç”£å‡ºã•ã‚Œã‚‹ãƒ‡ãƒ¼ã‚¿ã‚’活用ã§ãる人æを育æˆã™ã‚‹ãŸã‚ã«ã€2014å¹´ã‹ã‚‰2017å¹´ã¾ã§å®Ÿæ–½ã—ãŸãƒãƒ³ã‚ºã‚ªãƒ³å½¢å¼ã®è¬›ç¿’会ã§ã™ã€‚ 本講習会ã¯ã€NBDCé‹å–¶å§”員会ã®äººæ育æˆåˆ†ç§‘会ã«ãŠã„ã¦ç–定ã—ãŸãƒã‚¤ã‚ªã‚¤ãƒ³ãƒ•ã‚©ãƒžãƒ†ã‚£ã‚¯ã‚¹äººæ育æˆã®ãŸã‚ã®ã‚«ãƒªã‚ュラムã«åŸºã¥ã実施ã—ã¾ã—ãŸã€‚
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Automatic IGV snapshot script
IBM and Illumina Partner to Standardize Genomic Data Interpretation
(Modern, mid-2016) RNA-seq software pipeline
Barcoded BAM -Software -Genome & Exome -Official 10x Genomics Support
GitHub - igvteam/igv.js: Embeddable genomic visualization component based on the Integrative Genomics Viewer
FermiKit: assembly-based variant calling for Illumina resequencing data
Welcoming Swift BioSciences Customers to IDT
http://genome.ucsc.edu/ENCODE/downloads.html
TruSeq ChIP Sample Prep Kit Support - Best Practices
Efficient way to Generate VCF files using Samtools | Janalytics
Choosing an NGS library prep kit provider
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