Biopython/C2/Writing-Sequence-Files/Khasi
From Script | Spoken-Tutorial
| Time | Narration |
| 00:01 | Khublei ia phi baroh. Ngi pdiang sngewbha ia phi sha kane ka tutorial halor ka Writing Sequence Files. |
| 00:07 | Ha kane ka tutorial, ngin pule: * Kumno ban shna Sequence Record Objects |
| 00:13 | Ban write ia ki sequences files |
| 00:15 | Pynkylla hapdeng file formats |
| 00:19 | Bad, jied records ha ka file da ka jingjrong. |
| 00:23 | Ban bud ia kane ka tutorial, phi dei ban tip bha ia ka |
| 00:27 | undergraduate Biochemistry lane Bioinformatics. |
| 00:31 | Bad basic Python programming. |
| 00:34 | Peit iaki Python tutorials ha ka link ba la ai harum. |
| 00:38 | Ban record ia kane ka tutorial, nga pyndonkam da ka: * Ubuntu OS version 14.10 |
| 00:45 | Python version 2.7.8 |
| 00:48 | Ipython interpretor version 2.3.0 bad * Biopython version 1.64. |
| 00:55 | Ngi lah dep pule hashwa shaphang ki function'parse' badreadban read ia ki contents jong ka file. |
| 01:03 | Ha kane ka tutorial, ngin sa pule kumno ban pyndonkam ia ka write function ban write ki sequences sha ka file. |
| 01:09 | Bad ban pyndonkam Convert function na ka bynta ka inter-conversion hapdeng Ki file format ba bun. |
| 01:16 | Mynta ngan pyni ia phi kumno ban pyndonkam ia write function. |
| 01:20 | Kane ka text file ba don u protein sequence. |
| 01:24 | Ka sequence bala pyni hangne kadei u insulin protein. |
| 01:28 | Ka file ka don ruh ki jingpyntip kum GI accession number bad description. |
| 01:36 | Mynta ngin ia shna ka Ïaka file naka bynta ka sequence haka FASTA format. |
| 01:41 | Ka synjam ba Nyngkong eh ka long ban shna ka sequence record object. |
| 01:45 | Ki jingtip ba kham bniah shaphang Sequence Record Objects: |
| 01:49 | Ka dei ka basic data type na ka bynta ka sequence input/output interface. |
| 01:55 | Ha ka sequence record object, ia ka sequence la pyniasoh bad ka jinglong ba kham halor kum ki identifiers bad descriptions. |
| 02:04 | Plie ia ka terminal da kaba nion lang ia ki Ctrl, Alt bad t keys. |
| 02:10 | Ha ka prompt, type: ipython, nion Enter. |
| 02:15 | Ha ka prompt, type iaki lain harum: |
| 02:18 | from Bio dot Seq module import Seq class. |
| 02:24 | from Bio dot SeqRecord module import Sequence Record class |
| 02:31 | Kaba bud, from Bio dot Alphabet module import generic protein class. |
| 02:38 | Kaba bud, ngan sa save ia ka sequence record object ha ka variable record1. |
| 02:45 | Copy ia ka sequence, id bad description na ka text file bad paste ia ka ha la ki jong ki lain ha ka terminal. |
| 02:56 | Nion Enter. |
| 02:58 | Ban peit ia ka output, type: record1. |
| 03:02 | Nion Enter. |
| 03:04 | Ka output ka pyni ia ka insulin protein sequence kum sequence record object. |
| 03:10 | Ka pyni ia ka sequence ryngkat u id bad description. |
| 03:13 | Ngin pyndonkam ia kawrite function ban pynkylla ia ka sequence record object haneng sha ka FASTA file. |
| 03:21 | Import SeqIO module na ka Bio package. |
| 03:26 | Kaba bud, type ia ka command line da ka write function ban pynkylla ia ka sequence object sha ka FASTA file. |
| 03:40 | Ka write function ka shim 3 tylli ki argument |
| 03:44 | Ka ba nyngkong ka dei ka variable ba buh ia ka sequence record object. |
| 03:49 | Ka ba ar ka dei ka kyrteng file ban write ia ka FASTA file. |
| 03:54 | Ka ba lai ka dei ka file format ban write. Nion Enter. |
| 03:58 | Ka Output ka pyni kawei, kata ka dei, ngi la pynkylla kawei ka sequence record object sha ka FASTA file. |
| 04:07 | Ka file ha ka FASTA format la save ha ka home folder kum "example.fasta". |
| 04:13 | Ngan shu maham ia phi ba ka output kan over-write ia kano kano ka file ba lah don lypa kaba don kajuh ka kyrteng. |
| 04:18 | Ban peit ia ka file, leit sha ka file ha ka home folder. |
| 04:24 | Plie ia kane ka file ha ka text editor. |
| 04:27 | Ka protein sequence ka lah long mynta ha ka FASTA format. |
| 04:31 | Khang ia u text editor. |
| 04:33 | Bun ki bioinformatics tools ki shim bun jait ki input file formats. |
| 04:38 | Te, teng teng ngi hap ban inter-convert hapdeng ki sequence file formats. |
| 04:44 | Ngi lah ban pynkylla ia ki files da kaba pyndonkam convert function ha SeqIO module. |
| 04:50 | Ban pyni nuksa, ngan pynkylla ia u GenBank file sha ka FASTA file. |
| 04:55 | Nga don u GenBank file ha ka home folder jong nga. |
| 04:59 | To ngan plie ia une ha u text editor. |
| 05:02 | U file u don HIV genome ha GenBank format. |
| 05:07 | Une u GenBank file u don ki jingbatai jong baroh ki genes ha ka genome, ha ka bynta ba nyngkong jong ka file. |
| 05:14 | Nangta sa bud da u genome sequence ba pura. |
| 05:18 | Khang ia u text editor. Type ia ki line ha terminal kumne harum. |
| 05:23 | Hangne u convert function u pynkylla ia baroh ka genome sequence kiba don ha GenBank file sha FASTA file. Nion Enter. |
| 05:33 | Ka file ba thymmai ha ka FASTA format mynta la save kum HIV.fasta ha ka home folder. |
| 05:39 | Leit sha ka file bad plie ha u text editor. |
| 05:46 | Khang ia u text editor. |
| 05:49 | Wat la ka long kaba suk ban pynkylla ia ka file formats da kaba pyndonkam convert function,hynrei ka don da u pud. |
| 05:56 | Ban write ia katto katne ki formats, donkam ia ki jingtip ba kiwei ki formats kim don. |
| 06:02 | kum Nuksa: Ngi lah ban pynkylla ia u GenBank file sha u FASTA file. Hynrei ngim lah ban leh da khongpong. |
| 06:09 | Kumjuh ruh, ngi lah ban pynkylla ia FASTQ file sha ka FASTA file hynrei ngim lah ban leh da khongpong pat. |
| 06:15 | Ban tip khap bniah shaphang ka convert function, type ia u help command. |
| 06:21 | Nion Enter.) |
| 06:24 | Nion 'q' ha ka keyboard ban ioh biang ia ka prompt. |
| 06:28 | Ngi lah ruh ban sei ia ki genesba shimet na ka HIV genome ha GenBank format. |
| 06:35 | Kine ki genes ba shimet lah ban save ruh ha FASTA lane kino kino ki formats. |
| 06:41 | Na bynta kane, type ia u code harum ha ka prompt. |
| 06:47 | Une u code un write ia baroh ki CDS gene sequences, ki id bad kyrteng jong ki gene ha ka file. |
| 06:56 | Ia kane ka file la save kum “HIV_geneseq.fasta” ha ka home folder jong phi. Nion Enter. |
| 07:07 | Da kaba pyndonkam u Biopython tools, ngi lah ban jied ia ki records jong ka file da ka jingjrong jong ka. |
| 07:12 | Hangne, nga lah plie ia u FASTA file “hemoglobin.fasta” uba don hynriew tylli ki records. |
| 07:19 | Kawei pa kawei ka record ki pher ha ka jingjrong. |
| 07:23 | Type iaki lain harum ban pynbeit nyngkong da ka record ba jrong tam. |
| 07:27 | Ka file ba thymmai kaba don u sequence ba la jied yn save kum "sorted_hemoglobin.fasta" ha ka home folder jong phi. |
| 07:38 | Ban ioh ia ki records ba lyngkot nyngkong, leh khongpong ia ki arguments ha ka records.sort command line. |
| 07:45 | To ngin batai lyngkot. Ha kane ka tutorial, ngi lah pule ban:* shna Sequence Record Objects |
| 07:51 | Write ia ki sequence files da kaba pyndonkam write function jongSequence Input/Output module. |
| 07:58 | Pynkylla hapdeng sequence file formats da kaba pyndonkamconvert function. |
| 08:03 | Bad, pynbeit ia ki records ha ka file da ka jingjrong. |
| 08:07 | Na ka bynta ka assignment: |
| 08:09 | Extract ia u gene "HIV1gp3" ha positions 4587 sha 5165 na ka genomic sequence jong HIV. |
| 08:21 | Ka file “HIV.gb” la kynthup lang ha ka code files jong kane ka tutorial. |
| 08:28 | Ka assignment ba lah dep jong phi kan don ia u code ba harum. |
| 08:43 | Ka video ha ka link harum ka batai lyngkot shaphang ka Spoken Tutorial project. |
| 08:48 | Sngewbha download bad peit ia ka. Ka Spoken Tutorial Project team ka ju pynlong workshops bad ai certificates naka bynta kito kiba pass ia ka online test. |
| 08:57 | Ban tip kham bniah, sngewbha thoh sha ngi. |
| 09:00 | Ia ka Spoken Tutorial Project la bei tyngka da ka NMEICT, MHRD, Government of India. |
| 09:06 | Khambun ki jingtip halor kane ka mission kadon haka link bala pyni. |
| 09:10 | Ia kane ka script la pynkylla sha ka Ktien Khasi da i Yuwanki Kharlukhi na Shillong, bad ma nga U Hezekiah Lyngdoh ngan pynkutnoh. khublei ba phi la ïasnoh lang. |
