Differences

This shows you the differences between two versions of the page.

--- who_looks_after_which_page [2019/08/29 09:22] – created 129.173.90.41
+++ who_looks_after_which_page [2024/10/28 09:51] (current) – 134.190.221.230
@@ Line 1: / Line 1: @@
+=====This page is quite obsolete - Jason=====
 Distinguishin LGT from contaminants
-Using UNIX
+Using UNIX -Bruce
-BLAST and PLAST
+BLAST and PLAST -Dayana
 Taxonomy recovery
-Using perun
+Using perun -Bruce
-Decontamination using a metagenomics approach
+Decontamination using a metagenomics approach -Dayana
-Multi-gene phylogeny pipeline
+Decontamination using read classifier (a.k.a Eukfinder) -Dayana
+Multi-gene phylogeny pipeline - Shelby
 TransDecoder for transcriptomes
@@ Line 17: / Line 21: @@
 Cleaning of Illumina Paired end reads
 Benchmarking Universal Single-Copy Orthologs (BUSCO)
 Trinity for assembling transcript reads
@@ Line 27: / Line 31: @@
 Search Protocol for Orthologs of Components of Key molecular systems (SPOCK)...\\ SORRY this is not up and running yet. Please complain with Dayana!
-Ortologs searches using panther HMMRs
+Ortologs searches using panther HMMRs -Dayana
 DECONSEQ for decontaminating reads
@@ Line 35: / Line 39: @@
 ASSEMBLING LONG READ DATA
-Dayana Salas - Utility scripts(taxonomy, coloring trees, phylogenetics, mixture models, domain architecture and more)
+Dayana Salas - Utility scripts(taxonomy, coloring trees, phylogenetics, mixture models, domain architecture and more) -Dayana
 Mapping RNAseq data to your genome
@@ Line 43: / Line 47: @@
 Using Mitoprot
-Perun and Environments
+Perun and Environments -Bruce
-Other software locations
+Other software locations -Bruce
-Databases locations
+Databases locations -Dayana
-Gene prediction framework
+Gene prediction framework -Dayana
 CGAL
-Extracting a single fasta entry (or multiple) from a multifasta file
+Extracting a single fasta entry (or multiple) from a multifasta file -Bruce
+From Nanopore to Gene Prediction
+Short read assembly
+Python Resources
+depth and breadth of coverage
+Binning tools
-From Nanopore to Gene Prediction
+Visualizing mitochondrial genomes