Micro binfie podcast
By Microbial Bioinformatics
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Subscribers: 14
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Episodes: 155
Description
Microbial Bioinformatics is a rapidly changing field marrying computer science and microbiology. Join us as we share some tips and tricks we’ve learnt over the years. If you’re student just getting to grips to the field, or someone who just wants to keep tabs on the latest and greatest - this podcast is for you.
The hosts are Dr. Lee - a bioinformatician in the United States, Dr. Nabil-Fareed Alikhan from the University of Oxford (UK), and Prof. Andrew Page from Origin Sciences (UK) and bring together years of experience in microbial bioinformatics.
The opinions expressed here are our own and do not necessarily reflect the views of University of Oxford or Origin Sciences.
Intro music : Werq - Kevin MacLeod (incompetech.com)
Licensed under Creative Commons: By Attribution 3.0 License
http://creativecommons.org/licenses/by/3.0/
Outro music : Scheming Weasel (faster version) - Kevin MacLeod (incompetech.com)
Licensed under Creative Commons: By Attribution 3.0 License
http://creativecommons.org/licenses/by/3.0/
Question and comments? microbinfie@gmail.com
| Episode | Date |
|---|---|
|
152 - Deacon part 2
|
Apr 09, 2026 |
|
151 - Deacon part 1
|
Mar 26, 2026 |
|
150 - Genomicx
|
Mar 12, 2026 |
|
149 - Bridging AI & Biosciences
|
Feb 09, 2026 |
|
148 - NextFlow debate 3
|
Nov 13, 2025 |
|
147 - NextFlow debate 2
|
Oct 30, 2025 |
|
146 - NextFlow debate 1
|
Oct 16, 2025 |
|
145 - micro binfie Pathoplexus part 2
|
Sep 25, 2025 |
|
144 - micro binfie Pathoplexus part 1
|
Sep 11, 2025 |
|
143 - where we catch up on our professional lives
|
Aug 28, 2025 |
|
142 - Microbinfie - genomeqc
|
Aug 07, 2025 |
|
140 Exploring Clinical Metagenomics
|
Jul 03, 2025 |
|
139 Lassa virus genomics
|
Jun 19, 2025 |
|
138 Decoding Tetracycline Resistance in MRSA
|
Jan 16, 2025 |
|
137 Contagion part 2
|
Jan 02, 2025 |
|
135 Assembling ATCC bacterial strains
|
Dec 19, 2024 |
|
141 hackathon panel
|
Dec 18, 2024 |
|
136 Contagion part 1
|
Dec 16, 2024 |
|
133 The Role of Bioinformatics in Public Health and Disease Outbreaks
|
Dec 05, 2024 |
|
134 Diving into MRSA, Genomics, and Public Health
|
Dec 05, 2024 |
|
132 Unlocking the Secrets of Antimicrobial Resistance in Metagenomes
|
Nov 21, 2024 |
|
131 Bioinformatics Evolution: Torsten Seemann on Snippy, Open-Source Support, and Global Genomics
|
Nov 07, 2024 |
|
130 Exploring Genomic Innovation and Machine Learning in Public Health
|
Oct 25, 2024 |
|
129 Genomics on the Frontier: Bactopia, Bioinformatics, and Pathogen Surveillance with Robert Petit
|
Oct 11, 2024 |
|
128 Haiti cholera outbreak with Christine Lee and Cynney Walters
|
Sep 19, 2024 |
|
127 Minimum spanning trees
|
Sep 05, 2024 |
|
126 Tree viz
|
Aug 22, 2024 |
|
125 Kostas Konstantinidis returns to talk to us about ANI and metagenomics
|
Jun 06, 2024 |
|
124 Kostas Konstantinidis talks to us about ANI and metagenomics
|
May 23, 2024 |
|
123 The Revolution of Hash Databases in cgMLST
|
Mar 21, 2024 |
|
122 GAMBIT: Genomic Approximation Method for Bacterial Identification and Tracking
|
Mar 09, 2024 |
|
121 K-mers, Sourmash, and Open Source Software - More Conversations with Titus Brown
|
Feb 01, 2024 |
|
120 Scaling Metagenomic Search with Sourmash - Conversations with Titus Brown
|
Jan 18, 2024 |
|
119 The Challenges of Microbial Taxonomy - Conversations with Titus Brown
|
Jan 04, 2024 |
|
118 Real bioinformaticians react to Jurassic Park
|
Dec 21, 2023 |
|
117 From Math to Metagenomics - Titus Brown on Career Journeys and Software Solutions
|
Dec 07, 2023 |
|
116 AI Authorship and Ethics in Academic Publishing for Genomics
|
Nov 23, 2023 |
|
115 Write-the: speeding up software development for bioinformatics
|
Nov 09, 2023 |
|
114 Write-the: Automating Code Documentation ChatGPT
|
Nov 04, 2023 |
|
113 Global Microbial Identifier conference with Ruth Timme
|
Sep 18, 2023 |
|
112 Global Microbial Identifier conference with Will Hsiao
|
Sep 17, 2023 |
|
111 Global Microbial Identifier with Finlay Maguire and Emma Griffiths
|
Sep 16, 2023 |
|
110 ChatGPT: The Bioinformatics Calculator
|
Jul 06, 2023 |
|
109 AI Unleashed: Navigating the Opportunities and Challenges of AI in Microbial Bioinformatics
|
Jun 22, 2023 |
|
Encore: What language should I learn?
|
Jun 08, 2023 |
|
108 SeqCode: a nomenclatural code for prokaryotes described from sequence data
|
May 25, 2023 |
|
107 Systematics and naming of prokaryotes in the era of sequencing
|
May 11, 2023 |
|
106 Why on earth would you do a PostDoc?
|
Apr 27, 2023 |
|
105 Mobile genetic elements panel discussion
|
Apr 20, 2023 |
|
104 The Kraken software suite
|
Apr 06, 2023 |
|
103 Release the Kraken
|
Mar 23, 2023 |
|
102 Early days of MLST
|
Mar 09, 2023 |
|
101 One Health with Natacha Couto and Ed Feil
|
Feb 23, 2023 |
|
100 The 100th episode
|
Feb 09, 2023 |
|
99 Stories from the frontlines of bioinformatics
|
Jan 26, 2023 |
|
98 Nomadic bioinformatics with Frank
|
Jan 12, 2023 |
|
97 Advances in sequencing technologies
|
Dec 29, 2022 |
|
96 IMMEM XIII and ASM NGS conference roundup
|
Dec 22, 2022 |
|
95 Lost in Translation with Torsten Seemann
|
Dec 08, 2022 |
|
94 The great scientific Mastodon migration
|
Nov 17, 2022 |
|
93 Roary Troubleshooting And Issues
|
Nov 10, 2022 |
|
92 Avoid dependency hell and get up and running fast
|
Oct 27, 2022 |
|
91 What language should I learn?
|
Oct 13, 2022 |
|
90 Public health bioinformatics on the cloud with WDL + Terra.bio
|
Sep 29, 2022 |
|
89 What do we do with WDL?
|
Sep 15, 2022 |
|
88 Sepia directors cut
|
Aug 04, 2022 |
|
87 Nextstrain, SARSCOV2 and dealing with a data deluge
|
Jul 21, 2022 |
|
86 What's next for nextstrain?
|
Jul 07, 2022 |
|
85 Breaking the dogma with bioinformatics
|
Jun 23, 2022 |
|
84 Bioinformatics in the noughties with Mark Pallen
|
Jun 09, 2022 |
|
83 A short journey into mobile genetic elements
|
May 26, 2022 |
|
82 Bioinformatics moments before the millennium
|
May 12, 2022 |
|
81 The people behind the benchmark datasets for SARS-CoV-2
|
Apr 29, 2022 |
|
80 Benchmark datasets for SARS-CoV-2
|
Apr 28, 2022 |
|
79 StaPH-B: Stable containers for public health bioinformatics
|
Apr 14, 2022 |
|
78 StaPH-B: state public health bioinformatics
|
Mar 31, 2022 |
|
77 Genomics for a new era
|
Mar 17, 2022 |
|
76 What are the major challenges for getting AMR genomics into the clinic?
|
Mar 03, 2022 |
|
74 SEPIA With Henk - Soup Or Salad Yes!
|
Feb 03, 2022 |
|
73 Bactopia and using workflow managers in bioinformatics part 2
|
Jan 20, 2022 |
|
72 Bactopia and using workflow managers in bioinformatics part 1
|
Jan 06, 2022 |
|
71 Bacterial taxonomy: Into the unknown, SeqCode, naming uncultured multitudes and renaming of phyla
|
Dec 17, 2021 |
|
70 Bacterial Taxonomy: the grand vista is ahead of us
|
Dec 17, 2021 |
|
69 Background to bacterial taxonomy
|
Dec 16, 2021 |
|
68 Bacterial Taxonomy: what is a species, what is a strain? part 2
|
Dec 09, 2021 |
|
67 Bacterial Taxonomy: what is a species, what is a strain?
|
Nov 25, 2021 |
|
66 Scholarly Communications for Bioinformaticians
|
Nov 18, 2021 |
|
75 How to review a bioinformatics paper in 10 days or less
|
Nov 02, 2021 |
|
65 Genomics of Mycobacterium tuberculosis
|
Oct 28, 2021 |
|
64 Mycobacterium tuberculosis: the forgotten pandemic
|
Oct 14, 2021 |
|
63 A dive into Campylobacter genomics
|
Sep 30, 2021 |
|
62 Campylobacter: the fussy little pathogen
|
Sep 16, 2021 |
|
61 Non FUNGIble tokens: you too can own BRCA1
|
Sep 02, 2021 |
|
Encore: 06 - What software not to write
|
Jul 01, 2021 |
|
60 Whats in a name: Salmonella and E. Coli
|
Jun 17, 2021 |
|
59 - Microbe Moment Micro Binfie
|
Jun 03, 2021 |
|
58 - StaPH-B careers with Curtis Kapsak and Kevin Libuit
|
May 21, 2021 |
|
57 StaPH-B - Docker containers for Public Health bioinformatics Part 1
|
May 07, 2021 |
|
56 SARS-CoV-2 And Sequencing Spike With Sanger Sequencing part 2
|
Apr 21, 2021 |
|
55 SARS-CoV-2 And Sequencing Spike With Sanger Sequencing - Welcome To 1995
|
Apr 08, 2021 |
|
54 SARS-CoV-2 In Canada and addressing data sharing and privacy
|
Apr 01, 2021 |
|
53 SARS-CoV-2 surveillance in Canada with CANCOGEN
|
Mar 25, 2021 |
|
52 SARS-CoV-2 sequencing in Denmark with Mads Albertsen
|
Mar 18, 2021 |
|
51 SARSCOV2 Round-up 3 and updates from Denmark
|
Mar 11, 2021 |
|
50 Atypical invasive non-typhoidal Salmonella in The Gambia
|
Feb 25, 2021 |
|
49 SARS-CoV-2 Tools and resources update
|
Feb 22, 2021 |
|
48 SARS-CoV-2 More Variants of Concern and updates from Africa
|
Feb 20, 2021 |
|
47 SARS-CoV-2 Rapid roundup and questions answered
|
Feb 08, 2021 |
|
46 SARS-CoV-2 genomics resources
|
Feb 08, 2021 |
|
45 Software deep dive: Enterobase
|
Feb 04, 2021 |
|
44 How to sequence SARS-CoV-2 using the ARTIC protocol with Joshua Quick
|
Jan 22, 2021 |
|
43 Why use genomics in an epidemic? with Sam Sheppard
|
Jan 21, 2021 |
|
42 Overcoming barriers to SARS-CoV-2 data analysis
|
Jan 20, 2021 |
|
41 SARS-CoV-2 Phylogenomics questions answered
|
Jan 19, 2021 |
|
40 A crash course in SARS-CoV-2 bioinformatics
|
Jan 18, 2021 |
|
39 Explaining the naming of SARS-CoV-2 new variants
|
Jan 16, 2021 |
|
38 Ontologies - effective data sharing
|
Jan 07, 2021 |
|
37 Ontologies - the secret sauce of bioinformatics
|
Dec 24, 2020 |
|
36 Roary the pangenome pipeline
|
Dec 10, 2020 |
|
35 The Wandering Bioinformatician
|
Nov 26, 2020 |
|
34 Moving from wet to dry with Phil Ashton
|
Nov 12, 2020 |
|
33 The untrained monkey
|
Oct 29, 2020 |
|
32 Looking behind Majora's Mask and nation wide tracking of SARS-CoV-2 genomics
|
Oct 15, 2020 |
|
31 Large scale sequencing of SARS-CoV-2 genomes from one region
|
Oct 01, 2020 |
|
30 How we made the podcast on our 1st birthday
|
Sep 17, 2020 |
|
29 Mashtree software deep dive
|
Sep 10, 2020 |
|
28 BRIG the BLAST Ring Image Generator
|
Aug 27, 2020 |
|
27 SNP-sites: rapid efficient extraction of SNPs from multi-FASTA alignments
|
Aug 13, 2020 |
|
26 SARS-CoV-2 contextual data specification for open genomic epidemiology
|
Aug 13, 2020 |
|
25 Sustainable bioinformatics software
|
Jul 30, 2020 |
|
24 Experimental projects lead to experimental software
|
Jul 16, 2020 |
|
23 CoronaHiT: large scale multiplexing of SARS-CoV-2 genomes on Nanopore
|
Jul 02, 2020 |
|
22 Assembly after party
|
Jun 25, 2020 |
|
21 Setting up coronavirus sequencing for real-time public health surveillance
|
Jun 16, 2020 |
|
20 Assembly read healing
|
Jun 11, 2020 |
|
19 Microbinfies assemble
|
May 28, 2020 |
|
18 Panel - Has Nanopore rendered onsite Illumina obsolete?
|
May 14, 2020 |
|
17 Bayesian magic in practice
|
Apr 30, 2020 |
|
16 The theory behind Bayesian Magic
|
Apr 16, 2020 |
|
15 Bioinformatics war stories
|
Apr 02, 2020 |
|
14 La resistance lives on: The AMR deep dive
|
Mar 19, 2020 |
|
13 Questions not to ask
|
Mar 05, 2020 |
|
12 Phylogenetics with the arborists part 2
|
Feb 20, 2020 |
|
11 Phylogenetics with the arborists part 1
|
Feb 06, 2020 |
|
10 History of file formats
|
Jan 23, 2020 |
|
09 Nobel prize or contamination
|
Jan 09, 2020 |
|
08 Looking back at 2019
|
Dec 26, 2019 |
|
07 Wham, BAM, thank you SAM.
|
Dec 12, 2019 |
|
06 Writing good bioinformatics software with Torsten Seemann
|
Nov 28, 2019 |
|
05 History of Genotyping - Decentralised Future
|
Nov 14, 2019 |
|
04 History of Genotyping - The early years
|
Oct 31, 2019 |
|
03 FASTQ - all your bases are belong to us
|
Oct 17, 2019 |
|
02 What bioinformatics software not to write part 2
|
Oct 03, 2019 |
|
01 What bioinformatics software not to write part 1
|
Sep 19, 2019 |
|
00 Trailer
|
Sep 17, 2019 |