illumina Local Run Manager CF 139-Variant 2.0 Analysis Module Software
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Local Run Manager CF 139-Variant 2.0 Analysis Module Workflow Guide
Ua umaview
Ole Local Run Manager CF 139-Variant 2.0 analysis module e mo le fa'aoga ile TruSight Cystic Fibrosis 139-Variant Assay. O le su'esu'ega e iloa ai le 139 fa'ama'i fa'ama'i fa'ama'i fa'ama'i e mafua ai suiga ma fesuiaiga o le cystic fibrosis transmembrane conductance regulator (CFTR) gene i le genomic DNA fa'aesea mai le toto atoa o tagata. O le au'ili'iliga o lo'o fa'atinoina le su'esu'ega lona lua ma le fa'atupuina o lipoti mai fa'asologa fa'asologa e fa'aaoga ai TruSight Cystic Fibrosis. Va'ai le afifi o lo'o fa'aofi i totonu TruSight Cystic Fibrosis Kit (Pepa # 1000000097720).
O le vaega au'ili'ili e iloilo ai vaega pupuu o ampDNA liified, po o amplicons, mo eseesega. Fa'atonuga fa'asologa o amplicons e mafai ai ona fa'asalalau maualuga o vaega fa'apitoa i le tele o samples.
E uiga i Lenei Taiala
O lenei ta'iala o lo'o tu'uina atu ai fa'atonuga mo le fa'atulagaina o ta'aloga mo le fa'asologa ma au'ili'iliga mo le CF 139-Variant 2.0 su'esu'ega module. O le fa'aogaina o le polokalame e mana'omia ai le malamalama fa'avae o le faiga fa'aogaina o Windows ma web fa'aoga fa'aoga e fa'atatau ile su'esu'ega. Mo faʻamatalaga e uiga i le Local Run Manager dashboard ma faʻatulagaga faʻaoga, tagaʻi i le Local Run Manager Software Reference Guide mo MiSeqDx
(pepa # 1000000011880).
Ulufale Faʻamatalaga Faʻamatalaga
Seti Parameter
- Ulufale i le Local Run Manager.
- Filifili Create Run, ona filifili lea CF 139-Variant 2.0.
- Tu'u se igoa tamo'e e iloa ai le tamo'e mai le fa'asologa e ala ile au'ili'iliga.
Fa'aoga mataitusi fa'anumera, avanoa, vase, po'o vase (40 mataitusi pe itiiti ifo). - [Filifili] Tu'u se fa'amatalaga taufetuli.
Fa'aoga mataitusi fa'anumera, avanoa, vase, po'o vase (150 mataitusi pe itiiti ifo). - Tu'u le numera o le lotoa ma le aso e muta ai le pusa tapenapenaga.
Fa'ailoa Samples mo le Taufetuli
Fa'ailoa samples mo le tamoe e faʻaaoga ai se tasi o filifiliga nei.- Ulufale sampLes ma le lima—Faaaoga le laulau avanoa i luga o le mata o le Fausia Tamo'e. Fautuaina sample vaieli ua fa'amanino.
- Fa'aulufale mai samples—Fa'asaga i fafo file i se fa'asologa o fa'ailoga e vavaeina koma (*.csv). O lo'o avanoa se fa'ata'ita'iga mo le la'uina i luga o le mata o le Create Run.
Ulufale Samples ma le lima
- Ulufale i se s tulaga eseample igoa i le Sample Igoa fanua.
Fa'aaogā mata'itusi fa'anumera, vase, po'o vase (40 mataitusi pe itiiti ifo). - Kiliki taumatau ma filifili le lelei ma le leaga pulea samples.
Ina ia fa'asaoina se tamo'e, e tatau ona i ai a itiiti ifo ma le tasi le lelei ma le tasi le leaga. - [Filifili] Ulufale e pei oample fa'amatalaga i le sample Fa'amatalaga tab.
Fa'aaogā mata'itusi fa'anumera, vase, po'o vase (50 mataitusi pe itiiti ifo). - [Filifili] Filifili se mea fa'apipi'i Fa'asinomaga 1 mai le Fa'asinomaga 1 (i7) lisi fa'alalo.
Ole la'asaga lea e filifili ona ole i7 ma le i5 fa'asologa o fa'amaumauga e fa'ato'a fa'ato'a fa'atasi ma se fa'asologa e le mafai. - [Filifili] Filifili se mea fa'apipi'i Fa'asinomaga 2 mai le Fa'asinomaga 2 (i5) lisi fa'alalo.
Ole la'asaga lea e filifili ona ole i7 ma le i5 fa'asologa o fa'amaumauga e fa'ato'a fa'ato'a fa'atasi ma se fa'asologa e le mafai. - Filifili le fa'ailoga lolomi e fa'aali ai le fa'atulagaina o ipu.
- Filifili Lolomi e lolomi ai le fa'atulagaina o ipu e fai ma fa'asinomaga mo le sauniaina o faletusi.
- [Filifili] Filifili Lafoa'i atu i fafo sample faʻamatalaga file.
- Filifili Save Run.
Afai e itiiti ifo i le 24 sampua fa'aulufaleina, o le Insufficient Sample faamalama o le a faaalia. Filifili Fa'agasolo e fa'aauau, pe filifili Fa'aleaogaina e fa'asa'o le samples.
FAATUATUA
Fa'agasolo ile itiiti ifo ile 24 samples e le faʻamaonia e Illumina. Va'ai TruSight Cystic Fibrosis Package Insert (Pepa # 1000000097720) mo nisi fa'amatalaga.
Fa'aulufale mai Samples
Sampe mafai ona faaulufale mai le faamatalaga mai ituaiga e lua o files:
- A sample faʻamatalaga file lea na auina atu muamua mai le CF 139-Variant 2.0 module e faʻaaoga ai le Export feature.
- Se mamanu file, lea e mafai ona gaosia e ala i le filifilia o le Faʻataʻitaʻiga i luga o le mata o le Create Run. Le mamanu file o lo'o i ai ulutala koluma sa'o mo le fa'aulufale mai, fa'atasi ai ma fa'amatalaga o lo'o tu'uina i koluma ta'itasi. Fa'aoga se fa'atonu mai fafo e fa'avasega ai le fa'ata'ita'iga file:
- Faaopoopo sample fa'amatalaga mo sample i le taufetuli.
- A uma loa sampLe faʻamatalaga ua faʻaopoopoina, tape soʻo se faʻamatalaga o loʻo totoe i totonu o sela e leʻi faʻaaogaina.
- Faasaoina mamanu file.
E faaulufale mai sampfa'amatalaga:
- Filifili Fa'aulufale Samples, ona su'e lea i le file ma filifili ai.
- Filifili le fa'ailoga lolomi e fa'aali ai le fa'atulagaina o ipu.
- Filifili Lolomi e lolomi ai le fa'atulagaina o ipu e fai ma fa'asinomaga mo le sauniaina o faletusi.
- [Filifili] Filifili Lafoa'i atu i fafo sample faamatalaga i fafo file.
- Filifili Save Run.
Afai e itiiti ifo i le 24 sampua fa'aulufaleina, o le Insufficient Sample faamalama o le a faaalia. Filifili Fa'agasolo e fa'aauau, pe filifili Fa'aleaogaina e fa'asa'o le samples.
FAATUATUA
Fa'agasolo ile itiiti ifo ile 24 samples e le faʻamaonia e Illumina. Va'ai TruSight Cystic Fibrosis Package Insert (Pepa # 1000000097720) mo nisi fa'amatalaga.
Fa'asa'o se Tamomo'e
Mo fa'atonuga i le fa'atonutonuina o fa'amatalaga i lau tamo'e a'o le'i fa'asologa, va'ai Local Run Manager
Polokalama Fa'asinoala Taiala mo MiSeqDx (pepa # 1000000011880).
Auala Iloiloga
Mo se fa'amatalaga o metotia au'ili'ili mo TruSight Cystic Fibrosis, va'ai le afifi fa'aofi TruSight Cystic Fibrosis Kit (Pepa # 1000000097720).
View Tamomoe ma I'uga
- Mai le Local Run Manager mata'itū, kiliki le igoa tamo'e.
- Mai le Run Overview laupepa, toeview le fa'asologa fa'asolosolo metrics.
- [Filifili] Filifili le Copy to Clipboard icon e kopi ai le ala o le faila faila.
- Filifili le Sequencing Information tab e toeview fa'ata'ita'i fa'asologa ma fa'amatalaga fa'aaoga.
- Filifili le Samples ma I'uga tab i view o au'ili'iliga.
O loʻo tuʻuina atu e le tab e pei oample lisi o loʻo aoteleina le telefoni, faʻatinoga, ma faʻamatalaga i luga o faʻatonuga.
Afai e toe fai su'esu'ega, fa'alautele le lisi o le Su'esu'ega Filifilia ma filifili le su'esu'ega talafeagai. - [Filifili] Kiliki faalua le Fa'amatalaga fanua e tu'u ai se fa'amatalaga e uiga i leample i le lisi. Kiliki Save Suiga.
- Filifili samples i le lisi e faʻaalia ai faʻamatalaga eseese faʻamatalaga. Sample fa'aaliga fa'amatalaga eseese i lalo ole sample lisi.
FAAMANATU O taimi uma e teu ai suiga, e maua ai se au'ili'iliga file o le a gaosia i le Alignment folder. Lenei file e aofia ai se taimi stamp faaopoopo i le file igoa, ma le faatulagaga YYMMDD_HHMMSS.
Mo nisi fa'amatalaga ile Run Overview ma Sequencing Information tabs, ma pe faʻafefea ona toe faʻatulagaina auʻiliʻiliga, vaʻai i le Local Run Manager Software Reference Guide mo MiSeqDx (pepa #
1000000011880).
Lot Tracking Data File
A mae'a loa su'esu'ega, filifili se tasi o filifiliga nei e view le LotTracking.txt file.
- Mai le Sample ma I'uga tab, kiliki le Fa'asalalau Loto Su'esu'ega Fa'amatalaga.
- Tatala le file i le Alignment folder.
Ole ala ile Alignment folder o loʻo faʻaalia ile Samples ma le I'uga tab i totonu o le Fuafuaga Su'esu'ega fanua. - [Filifili] Filifili le Copy to Clipboard icon e kopi ai le ala faila o au'ili'ili.
A maeʻa suʻesuʻega, o le tele o faʻamaumauga siaki file ua tusia i le Alignment folder mo le tamoe. Mo example: MiSeqAnalysis\ \Alignment_N\YYMMDD_HHMMSS. N o se numera fa'asolosolo e fa'atupula'ia pe a toe fa'atonu le su'esu'ega. YYMMDD_HHMMSS o le taimi sili leaamp o le taufetuli.
Lipoti i'uga
A mae'a su'esu'ega lona lua, ona aoteleina lea o taunu'uga ile Samples ma I'uga tab. O se au'ili'iliga fa'ai'uga (output) file aua o le su'ega o lo'o aoteleina ai fo'i i'uga i se tusitusiga e tasi le fa'ailoga file ta'ua TruSightCF139VariantAssay.txt.
I'uga i taunu'uga au'ili'ili file aofia ai faʻamatalaga o loʻo maua ile Sample ma I'uga tab. Filifili se tasi o filifiliga nei e view i'uga au'ili'ili file TruSightCF139VariantAssay.txt:
- Mai le Sample ma Results tab, kiliki Faʻamatalaga Faʻasalalau.
- Tatala le file i le Alignment folder.
O le ala i le Alignment folder o loʻo faʻaalia i totonu o le Fuafuaga Suʻesuʻega fanua o le Samples ma I'uga tab.
FAAMANATU
Filifili le Copy to Clipboard icon e kopi ai le ala faila o au'ili'ili.
O le auiliiliga files mo fa'asologa fa'asologa ta'itasi o lo'o teuina i luga o meafaigaluega, ma files faasaoina i
MiSeqAnalysis\ \Data\Intensities\BaseCalls ma MiSeqAnalysis\
Igoa>\Alignment_N\YYMMDD_HHMMSS. N o se numera fa'asolosolo e fa'atuputeleina pe a toe fa'atonu le su'esu'ega. YYMMDD_HHMMSS o le taimi sili leaamp o le taufetuli.
I'uga Iloiloga File Fa'amatalaga
O i'uga au'ili'ili file TruSightCF139VariantAssay.txt e aofia ai vaega e tolu: le file ulutala, sample faamatalaga, ma sample variants faamatalaga. O le file ulutala o loʻo lisiina muamua, ma e aofia ai faʻamatalaga lautele e uiga i le tamoe. Manatua e na o le tasi lava file ulutala i le tamoe. I se eseesega, sample faamatalaga ma sample fa'amatalaga eseese o lo'o aofia mo s umaample faʻaaogaina i le auiliiliga. O nei vaega e fa'atasi fa'atasi mo s ta'itasiample.
O le laulau o lo'o i lalo o lo'o tu'uina atu ai se fa'amatalaga o laina ta'itasi i le file ulutala, lea e aofia ai faʻamatalaga e uiga i le taʻavale:
Laulau 1 File Ulutala (Fa'amatalaga Fa'aauau)
- Su'ega Fa'amatala le su'ega na faia. Run ID Run ID na faia e le MiSeq Operating Software (MOS) i le amataga o le faasologa o le faasologa.
- Run Date Date (YYMMDD) na amata ai le fa'asologa i le MOS.
- Su'esu'ega Version Software version sa fa'aoga mo le au'ili'iliga.
O le siata o lo'o i lalo o lo'o tu'uina atu ai se fa'amatalaga o laina ta'itasi i le sampvaega o faamatalaga: Laulau 2 Sample Fa'amatalaga
- Sample ID O le sampLe igoa na tu'uina atu i le taimi na faia ai le tamo'e, fa'atasi ma le ID au'ili'ili na tu'uina mai e le polokalame Local Run Manager. Afai e te requeue se tamoe, o le sample igoa ole vaega ole Sampe tumau le ID, a'o suiga ole ID au'ili'ili.
- O lenei fanua o lo'o i le *.txt file na'o.
Sample Igoa O le sample igoa na tuuina mai ina ua faia le tamoe.
O le laulau o lo'o i lalo o lo'o maua ai fa'amatalaga o koluma ta'itasi i le sampvaega eseese: Laulau 3 Sample Variants Faamatalaga
Toe Iloilo Tala'aga
- Fa'amatalaga Aso Fa'amaumauga o Suiga
- Pepa # 1000000100945 v01 Aokuso 2021 Fa'afouina le tuatusi o le Sui Fa'atagaina a le EU.
- Pepa # 1000000100945 v00 Tesema 2019 Fa'alauiloa muamua.
Fesoasoani Fa'atekinisi
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- imeli: techsupport@illumina.com
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Pepa / Punaoa
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illumina Local Run Manager CF 139-Variant 2.0 Analysis Module Software [pdf] Taiala mo Tagata Fa'aoga Local Run Manager CF 139-Variant 2.0 Analysis Module, Software, Local Run Manager CF 139-Variant 2.0 Analysis Module Software |
