Category:Bioinformatics: Difference between revisions
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=== Docker === | |||
# [[Basic Pull]] | |||
===Info === | |||
# [[IP]] | |||
===Bio ITC Projects=== | ===Bio ITC Projects=== | ||
# [[SSR_Corymbia]] | |||
# [[Ortho-SSR-Euca]] | # [[Ortho-SSR-Euca]] | ||
# [[Transcriptomics-Tobacco]] | # [[Transcriptomics-Tobacco]] | ||
# [[GenePrediction-Euca]] | # [[GenePrediction-Euca]] | ||
# [[Tilling_Genes]] | # [[Tilling_Genes]] | ||
# [[SBase Genes]] | Water use efficiency | |||
# [[Casuarina Genome initiative]] | |||
===Bio Other Projects=== | |||
# [[Ppea-EST]] | |||
# [[Sangar_split]] | Raja, Canada | |||
# [[Soghum Physical mapping]] | EST-GDNA | Rajendrakumar | DRR, Hyderabad | |||
# [[Heterosis Genes Synteny]] | Rice-wheat-maize on Sorghum | RK | DRR, Hyderabad | |||
# [[BES-NR_Blast_Flax]] | Flax BES blast against Non Redundant database | |||
# [[Parse_EST-BES_Flax]] | Parse the required parameters from Blast Output | |||
# [[parse_sorghum_genome.pl]] parse the sorghum genome data to have comfortable files | RK | |||
# [[SSR on BES]] | Uses Misa and Primer3 | |||
# [[Repeat_Blast]] | Parse Blast on various repeats | |||
# [[TGICL assembly]] | Caster unigenes | For Rajendra kumar | |||
=== My Perl=== | === My Perl=== | ||
| Line 11: | Line 33: | ||
# [[Fix_digits]] | # [[Fix_digits]] | ||
# [[count_fasta_characters]] | # [[count_fasta_characters]] | ||
# [[Multithreading]] | |||
# [[Transpose]] | |||
# [[uniq]] | |||
# [[Push_to_Array]] | |||
===BioPerl=== | ===BioPerl=== | ||
# [[BioPerl]] | # [[BioPerl]] | ||
# [[Fetching_Fasta]] | # [[Fetching_Fasta]] | ||
# [http://jura.wi.mit.edu/bio/education/bioinfo/pages/perl_bioinfo.html Some_Perl_examples] | |||
===MySql=== | ===MySql=== | ||
# [[Mysql_commands]] | # [[Mysql_commands]] | ||
# [[Phpmyadmin]] | # [[Phpmyadmin]] | ||
# [[perl-mysql]] | |||
===Shell=== | ===Shell=== | ||
# [[Crontab]] | |||
# [[Shell]] | # [[Shell]] | ||
# [[Compression]] | |||
# [[bashrc]] | |||
===Software Implementation=== | ===Software Implementation=== | ||
* [[Blast]] | * Genome | ||
* [[circos]] | ** [[Blast]] | ||
* [[misa_pipe]] | ** [[circos]] | ||
* [[tgicl]] | ** [[misa_pipe]] | ||
* [[genemark]] | ** [[tgicl]] | ||
* [[genewise]] | ** [[genemark]] | ||
* [[genomethreader]] | ** [[genewise]] | ||
* [[ | ** [[genomethreader]] | ||
** [[Tablet]] | Assembly | [http://bioinf.scri.ac.uk/tablet/] | |||
** [[Unscrambler]] | [http://www.camo.com/downloads/products/UnscramblerTrial.zip Download] | Good for PCA | |||
* Stat | |||
** [[FSTAT]] | |||
Latest revision as of 16:57, 22 October 2024
Docker
Info
Bio ITC Projects
- SSR_Corymbia
- Ortho-SSR-Euca
- Transcriptomics-Tobacco
- GenePrediction-Euca
- Tilling_Genes
- SBase Genes | Water use efficiency
- Casuarina Genome initiative
Bio Other Projects
- Ppea-EST
- Sangar_split | Raja, Canada
- Soghum Physical mapping | EST-GDNA | Rajendrakumar | DRR, Hyderabad
- Heterosis Genes Synteny | Rice-wheat-maize on Sorghum | RK | DRR, Hyderabad
- BES-NR_Blast_Flax | Flax BES blast against Non Redundant database
- Parse_EST-BES_Flax | Parse the required parameters from Blast Output
- parse_sorghum_genome.pl parse the sorghum genome data to have comfortable files | RK
- SSR on BES | Uses Misa and Primer3
- Repeat_Blast | Parse Blast on various repeats
- TGICL assembly | Caster unigenes | For Rajendra kumar
My Perl
- PerlTemplate
- split_file
- Fix_digits
- count_fasta_characters
- Multithreading
- Transpose
- uniq
- Push_to_Array
BioPerl
MySql
Shell
Software Implementation
Pages in category "Bioinformatics"
The following 62 pages are in this category, out of 62 total.