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[ DevCourseWeb com ] Udemy - Python for Biologists
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1. Requirements and tips for talking with a computer
1. Introduction.mp4
10. Tips for writing the variable name or identifier.mp4
11. Correct the code.html
12. Summary.mp4
13. Reduce the risk of using reserved words with the case sensitivity feature.mp4
14. Correct the code.html
15. Summary.mp4
16. The difference between comments and codes.mp4
17. Correct the code.html
18. Summary.mp4
19. Receiving and processing user data and producing output..mp4
2. Defining the programming language and installing python on Windows and Mac.mp4
20. Correct the code.html
21. Summary.mp4
22. Optional tips for organizing variables.mp4
23. Summary.mp4
3. Ways to write and run python codes Interactive interpreter.mp4
4. Ways to write and run python codes Python script.mp4
5. Ways to write and run python codes IDE.mp4
6. Summary.mp4
7. Full course scripts.html
8. Create a variable.mp4
9. Create a variable.html
C4
FASTQ
__init__.py
__pycache__
__init__.cpython-39.pyc
extractIDs.cpython-39.pyc
fastq2fasta.cpython-39.pyc
qual.cpython-39.pyc
extractIDs.py
fastq2fasta.py
qual.py
qual.txt
__pycache__
s104.cpython-39.pyc
s105.cpython-39.pyc
s110.cpython-39.pyc
exampleFile.txt
hello.py
s1.py
s10.py
s100.py
s101.py
s102.py
s103.py
s104.py
s105.py
s106.py
s107.py
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s2.py
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s3.py
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s4.py
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s99.py
strftime_format_codes.txt
z-e1-all-writelines.fasta
z-e1-all.fasta
z-e1-method1.fasta
z-e1-method2.fasta
z-e1.fasta
z-e2.txt
z-e3.txt
z-e4.txt
z-escape_characters.tab
z-geneID_3667.gb
z-rna-seq
SRR6924568-MB
SRR6924568_1.fastq-HQ_IDS.txt
SRR6924568_1.fastq-qual.txt
SRR6924568_2.fastq-HQ_IDS.txt
SRR6924568_2.fastq-qual.txt
SRR7755529-GB
MIOX-Gene.fasta
SRR7755529_1.fastq-extractIDs.fastq
SRR7755529_1.fastq-fastq2fasta.fasta
SRR7755529_1.fastq-qual.txt
z-tRNA-rRNA_methyltransferase
genomicDNA-RNA.fasta
mRNA.fasta
10. Functions for handling tuple data type
1. Obtain a tuple length, and minimum and maximum items of a tuple.mp4
11. Functions and methods for handling dictionary data type
1. Review.mp4
2. Obtain a dictionary length.mp4
3. Remove dictionary items.mp4
4. Copy a dictionary.mp4
5. Convert a tuple items into a dictionary keys.mp4
6. Control errors while accessing the dictionary keys.mp4
7. Convert a dictionary to a list of tuples and extract keys and values separately.mp4
8. Update a dictionary.mp4
12. Handling files and operating systems
1. Review.mp4
10. Summary.mp4
11. Open a file for read and write purposes.mp4
12. Summary.mp4
13. Open a file for write and read purposes.mp4
14. Summary.mp4
15. Open a file for append and read purposes.mp4
16. Summary.mp4
17. Dealing with the content of the open file for the purpose of reading.mp4
18. Dealing with read lines one by one.mp4
19. Output a list in a file.mp4
2. Summary.mp4
20. Read files with for loop Preserving memory from complexity.mp4
21. The second and preferred way to open files Don't be afraid to close files.mp4
22. Handle paths The current path and how to go and get the contents.mp4
23. Creating a folder or folders.mp4
24. Delete a folder.mp4
25. Delete folders.mp4
26. Rename a folder or folders.mp4
3. The modes for opening a file..mp4
4. Open a file for read-only purpose.mp4
5. Summary.mp4
6. Open a file for overwrite-only purpose.mp4
7. Convert fasta multi-lines to fasta two-lines Method1.mp4
8. Convert fasta multi-lines to fasta two-lines Method2.mp4
9. Open a file for append-only purpose.mp4
13. Handling time and date
1. Dealing with time and date.mp4
2. Which is faster Calculating the time taken for two GC content calculator codes.mp4
3. Dealing with a specific format of time and date in terms of output or reading.mp4
4. Wait in Python.mp4
14. Creating python function Arranging and organizing codes in an effective format
1. Modify some codes to use as examples.mp4
10. Summary.mp4
11. Argument for unlimited items.mp4
12. Summary.mp4
13. The lambda as an alternative function in case of small code.mp4
14. Summary.mp4
2. Modify some codes to use as examples.mp4
3. Create and call functions and the difference between print and return.mp4
4. Summary.mp4
5. The arguments and their function are pass-throughs of data across the function.mp4
6. Summary.mp4
7. Global (outside) variables and local (inside) variables.mp4
8. Summary.mp4
9. The required and default arguments and the argument keyword.mp4
15. Modules and scripts as a small product for your code
1. Import modules, see python paths, and import methods.mp4
10. Summary.mp4
2. Summary.mp4
3. Combine module and script using if name == main.mp4
4. Summary.mp4
5. Further clarification of the importance of if name == main.mp4
6. Summary.mp4
7. Further clarification of ways to import modules or functions within modules.mp4
8. Summary.mp4
9. Get global and local variables contained in functions.mp4
16. Create a python package from scratch Producing a python application for users
1. Obtain RNA-seq data from ENA Browser - European Nucleotide Archive.html
10. Improving the first module to receive quality and its percentage from the user.mp4
11. Correction of errors discovered in the first module.mp4
12. The end A short story for the last tip.mp4
2. Create the first module to estimate the quality of nucleotides in the FASTQ file.mp4
3. Completing the creation of the first module.mp4
4. Summary.mp4
5. Improve the first module to deal with several files.mp4
6. Create the second module to convert a FASTQ file to a FASTA.mp4
7. Modifications to the second module.mp4
8. Create the third module to extract specific IDs from the FASTQ.mp4
9. Create the package First module test.mp4
2. Data containers in python (types and conversions)
1. Refresh.mp4
10. Summary.mp4
11. The problem of receiving data, whether from the command interface or a file.mp4
12. Convert from an integer to a float or vice versa.mp4
13. Complete the code Convert from integer to float and vice versa.html
14. Work with the complex.mp4
15. Convert from a number to a string and vice versa.mp4
16. Complete the code Convert from a number to a string and vice versa.html
17. Complete the code Convert from a number to a string.html
18. Summary.mp4
19. Convert from a string to a list or tuple.mp4
2. Number data type.mp4
20. Complete the code Convert from a string to a list or tuple.html
21. Convert from a list or tuple to a dictionary.mp4
22. Summary.mp4
3. Create a variable that stores a number.html
4. String data type.mp4
5. Create a variable that stores a string.html
6. List and tuple data types.mp4
7. Create a variable that stores a list or tuple.html
8. Dictionary data type.mp4
9. Create a variable that stores a dictionary.html
3. Access the items in the data containers
1. Introduction.mp4
2. The forward index.mp4
3. The reverse index.mp4
4. Create a data type from items of another data type using the index.mp4
5. The dictionary key.mp4
6. Summary.mp4
4. Congratulations, this is your first program using the Python language
1. Prepare and save external data in a data type in python Create small database.mp4
2. The first code Unraveling the mystery of the IUPAC ambiguity codes.mp4
3. The second code The inverse of the first code.mp4
5. Perform operations and set conditions or questions
1. Introduction Arithmetic operators Addition and subtraction.mp4
10. Create a code that calculates extra nucleotides in DNA before translation.mp4
11. Summary.mp4
12. Assignment operators.mp4
13. Summary.mp4
14. Comparison operators Equality.mp4
15. Comparison operators Greater than and less than.mp4
16. Summary.mp4
17. Create a code that compares two sequences in terms of both length and content.mp4
18. Summary.mp4
19. Membership operators.mp4
2. Arithmetic operators Multiplcation, division, floor division, and exponent.mp4
20. Summary.mp4
21. Create a code that searches for a restriction recognition site in DNA.mp4
22. Logical operators.mp4
23. Summary.mp4
24. Create a code that searches for MULTIPLE restriction recognition sites in DNA.mp4
25. Summary.mp4
26. Identity operators.mp4
27. Summary.mp4
28. Bitwise operators Convert from an integer to a binary and vice versa.mp4
29. Bitwise operators And, or, xor.mp4
3. Arithmetic operators Modulus.mp4
30. Bitwise operators 2s complement, and left and right shift.mp4
31. Summary.mp4
4. Summary.mp4
5. Arithmetic operators Handling string and list.mp4
6. Summary.mp4
7. Arithmetic operators Operator precedence.mp4
8. Summary.mp4
9. Create a code that calculates extra nucleotides in DNA before translation.mp4
6. Decision making support
1. If statement, if-else statement, and if-elif-else statement.mp4
2. Summary.mp4
3. Create a code that determines whether the sequence is DNA or RNA.mp4
4. Zero, non-zero, null, and non-null values.mp4
5. Nested if.mp4
7. Repeat commands in loops
1. The while loop.mp4
2. Summary.mp4
3. Calculating the GC content using the while loop.mp4
4. The for loop.mp4
5. Calculating the GC content using the for loop.mp4
6. Control loops with break, continue, and pass.mp4
7. Summary.mp4
8. Functions and methods for handling string data type
1. Review.mp4
10. Center a string to total width columns.mp4
11. Left and right adjustment of a string for the total width of the columns.mp4
12. Count how many times a string or substring occurs in a string.mp4
13. Test if a string or substring of the string ends with a certain suffix.mp4
14. Test if a string or substring of the string starts with a certain prefix.mp4
15. Expand tabs in string to multiple spaces.mp4
16. Find starting index of a string or substring that occurs in a string.mp4
17. Find starting index of a string or substring that occurs backwards in a string.mp4
18. Search starting index of a string or substring that occurs in a string.mp4
19. Search starting index of a string or substring that occurs backwards in a string.mp4
2. Summary.mp4
20. Test if a string contains alphanumeric character(s).mp4
21. Test if a string contains alphabetic character(s).mp4
22. Test if a string contains digits only.mp4
23. Test if a string contains upper- or lower-case and convert from one to another.mp4
24. The difference between numbers test.mp4
25. Test if a string contains white space(s).mp4
26. Test if a string is a title and create title.mp4
27. Concatenate list or tuple items into a string.mp4
28. Obtain a string length.mp4
29. Remove leading or tailing character(s) or from both sites of a string part 1.mp4
3. Non-printable characters.mp4
30. Remove leading or tailing character(s) or from both sites of a string part 2.mp4
31. Replace a string or substring of a string part 1.mp4
32. Replace a string or substring of a string part 2.mp4
33. Create a translation table and translate a string.mp4
34. Obtain the minimum and maximum character from a string.mp4
35. Split a string based on delimiter string or substring to a list of substrings.mp4
36. Swap string characters from upper- to lowercase and vice versa.mp4
37. Fill a string using zero(s).mp4
4. Summary.mp4
5. String formatting part 1.mp4
6. Summary.mp4
7. String formatting part 2.mp4
8. Summary.mp4
9. Capitalize the first letter of a string.mp4
9. Functions and methods for handling list data type
1. Review.mp4
10. Remove a duplicate items of a list.mp4
2. Obtain a list length, and minimum and maximum items of a list.mp4
3. Add an item to the end or certain location of a list.mp4
4. Extend a list by another list.mp4
5. Count how many times an item occurs in a list.mp4
6. Search starting index of an item that occurs in a string.mp4
7. Remove an item using its index or content.mp4
8. Sort list items.mp4
9. Reverse the order of a list.mp4
Bonus Resources.txt
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