LeeBergstrand BackBLAST_Reciprocal_BLAST issues

LeeBergstrand / BackBLAST_Reciprocal_BLAST

This repository contains a reciprocal BLAST program for filtering down BLAST results to best bidirectional hits. It also contains a toolkit for finding and visualizing BLAST hits for gene clusters within multiple bacterial genomes.

MIT License

14 stars 8 forks source link

issues

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Help with BackBlast Please!

#64 Calvin2077 opened 1 year ago
1
Look for symlinked reference genomes

#63 jmtsuji opened 1 year ago
0
Update dependencies

#62 jmtsuji closed 1 year ago
2
Check all input pathways before calling BLASTp (search.py)

#61 LeeBergstrand opened 2 years ago
3
Add sanity check to ensure that the query sequences are contained the query genome proteins (search.py)

#60 LeeBergstrand opened 2 years ago
2
Support for Multiple BLASTp Threads (search.py)

#59 LeeBergstrand closed 2 years ago
3
Convert CLI interface to python

#58 jmtsuji opened 4 years ago
0
fail to run set up

#57 xushaoyi opened 4 years ago
18
Debug code

#56 jmtsuji closed 4 years ago
0
Add query coverage cutoff

#55 jmtsuji closed 4 years ago
0
Update R code and conda install

#54 jmtsuji closed 3 years ago
5
Update R code and conda install

#53 jmtsuji closed 4 years ago
0
Improve documentation about automated phylogeny

#52 jmtsuji opened 4 years ago
1
Error in rule generate_phylogenetic_tree

#51 annabananakobana closed 4 years ago
9
Update README.md

#50 LeeBergstrand closed 4 years ago
1
Reorganize files

#49 jmtsuji closed 4 years ago
8
Reorganize files

#48 jmtsuji closed 4 years ago
1
Large repo size

#47 jmtsuji opened 5 years ago
4
Unneeded files in BackBLAST

#46 jmtsuji closed 5 years ago
1
Remove BackBlast name from scripts

#45 LeeBergstrand closed 4 years ago
6
Reorganize files

#44 jmtsuji closed 5 years ago
1
Add graph support directly into search.py

#43 jmtsuji opened 5 years ago
3
Best practice for BackBLAST conda install

#42 jmtsuji closed 5 years ago
3
Major repo reorganization

#41 jmtsuji closed 5 years ago
0
Make BackBLAST scripts python3 compatible

#40 jmtsuji closed 5 years ago
1
Reciprocal blast

#39 jmtsuji closed 5 years ago
1
Using thread number in temp_query may not be HPC safe.

#38 LeeBergstrand closed 5 years ago
2
Snakemake

#37 jmtsuji closed 5 years ago
9
Give unique temp file name for each run

#36 jmtsuji closed 5 years ago
2
Minor enhancements for BackBLAST2

#35 jmtsuji opened 5 years ago
0
Unusual behaviour in BackBLAST.py when run in multiple instances

#34 jmtsuji closed 5 years ago
5
Snakemake

#33 jmtsuji closed 5 years ago
4
Specified input types to float

#32 jmtsuji closed 5 years ago
0
Incorrect variable types

#31 jmtsuji closed 5 years ago
2
Add CLI flag for already indexed database

#30 Sanrrone closed 5 years ago
3
Input File Documentation

#29 LeeBergstrand closed 5 years ago
5
Generate back blast heatmap

#28 jmtsuji closed 5 years ago
6
Snakemake

#27 jmtsuji closed 5 years ago
0
Added --output_file flag

#26 jmtsuji closed 5 years ago
2
Fixed script paths and logging

#25 jmtsuji closed 5 years ago
0
Added output file flag

#24 jmtsuji closed 5 years ago
0
Snakemake

#23 jmtsuji closed 5 years ago
0
Combine blast tables

#22 jmtsuji closed 5 years ago
0
Create blank results

#21 jmtsuji closed 5 years ago
0
Snakemake

#20 jmtsuji closed 5 years ago
0
Generate back blast heatmap

#19 jmtsuji closed 5 years ago
0
Combine blast tables

#18 jmtsuji closed 5 years ago
5
Create blank results

#17 jmtsuji closed 5 years ago
5
Improve blast function and refactor.

#16 LeeBergstrand closed 6 years ago
2
Refactor CreateBlankResults.py

#15 jmtsuji closed 5 years ago
1